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_008226	Clostridioides difficile 630 plasmid pCD630, complete sequence	0 crisprs	NA	0	0	1	0
NC_009089	Clostridioides difficile 630, complete genome	22 crisprs	csa3,RT,WYL,cas3,cas14j,DEDDh,DinG,PD-DExK,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	4	46	10	1

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

0 : 7327

Clostridium_phage(71.43%)

capsid

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_011572947.1\|0_456_-	hypothetical protein	A0A0A8WFR2	Clostridium_phage	1.9e-25	45.3
WP_011572948.1\|592_3202_-	DEAD/DEAH box helicase	A0A0A8WFR2	Clostridium_phage	5.2e-200	54.9
WP_161420484.1\|3463_3781_-	hypothetical protein	NA	NA	NA	NA
WP_011572950.1\|3927_4077_+	ribbon-helix-helix domain-containing protein	B5LPT4	Bacillus_virus	1.4e-06	56.5
WP_011572951.1\|4149_4695_+	hypothetical protein	A0A2R2ZGU7	Clostridioides_phage	3.1e-06	24.9
WP_032509615.1\|4877_5078_-	hypothetical protein	NA	NA	NA	NA
WP_011572943.1\|5235_5529_-	hypothetical protein	A0A0A8WJ48	Clostridium_phage	3.8e-51	100.0
WP_011572944.1\|5528_5744_-	hypothetical protein	A0A0A8WID8	Clostridium_phage	1.4e-31	100.0
WP_011572945.1\|5995_7327_-\|capsid	phage major capsid protein	J9QDY4	Clostridium_phage	2.8e-08	26.0

Anti-CRISPR protein detection

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

2. NC_009089

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CRISPR-Cas detection and classification

Crispr_ID: NC_009089_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_1

141413-141491

Orphan

Consensus_repeat	Method
TGTTTATAATGTGGATAATATTTAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009089_1

>merge|NC_009089|1|141413-141491|CRISPRCasFinder
TGTTTATAATGTGGATAATATTTAATGTAATAAGTTAAAGCAATATGAATCAACTGTTTATAATGTGGATAATATTATA

>NC_009089|1|1|141413-141491|CRISPRCasFinder
TGTTTATAATGTGGATAATATTTAA	TGTAATAAGTTAAAGCAATATGAATCAAC
TGTTTATAATGTGGATAATATTATA

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_003435660.1\|118440_119274_+\|energy-coupling-factor-transporter-ATPase	unknown	unknown	gnl\|CDD\|275313
NC_009089.1\|WP_003420706.1\|158966_159182_+\|4Fe-4S-dicluster-domain-containing-protein	unknown	unknown	gnl\|CDD\|225131
NC_009089.1\|WP_003420711.1\|161042_161600_+\|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma	unknown	unknown	gnl\|CDD\|376567
NC_009089.1\|WP_003432442.1\|159210_160290_+\|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB	unknown	unknown	gnl\|CDD\|235942
NC_009089.1\|WP_003420702.1\|157177_158257_+\|butyrate-kinase	unknown	unknown	gnl\|CDD\|235099
NC_009089.1\|WP_011860635.1\|120121_120925_+\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	unknown	unknown	gnl\|CDD\|223692
NC_009089.1\|WP_003435654.1\|120956_121688_+\|tRNA-pseudouridine(38-40)-synthase-TruA	unknown	unknown	gnl\|CDD\|234577
NC_009089.1\|WP_021413454.1\|123117_123870_+\|N-acetylmuramoyl-L-alanine-amidase-CwlD	unknown	unknown	gnl\|CDD\|274337
NC_009089.1\|WP_009900804.1\|153983_154772_+\|TIGR00159-family-protein	unknown	unknown	gnl\|CDD\|224539
NC_009089.1\|WP_003421105.1\|122267_122660_+\|30S-ribosomal-protein-S9	unknown	unknown	gnl\|CDD\|178888
NC_009089.1\|WP_003421107.1\|121807_122239_+\|50S-ribosomal-protein-L13	unknown	unknown	gnl\|CDD\|181703
NC_009089.1\|WP_009892490.1\|136462_137647_-\|pyridoxal-phosphate-dependent-aminotransferase	unknown	unknown	gnl\|CDD\|235596
NC_009089.1\|WP_003420701.1\|156253_157156_+\|phosphate-butyryltransferase	unknown	unknown	gnl\|CDD\|180267
NC_009089.1\|WP_003436320.1\|138019_140371_+\|anaerobic-ribonucleoside-triphosphate-reductase	unknown	unknown	gnl\|CDD\|235937
NC_009089.1\|WP_011860638.1\|161769_163116_+\|phosphoglucosamine-mutase	unknown	unknown	gnl\|CDD\|237670
NC_009089.1\|WP_003432439.1\|154768_155950_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227193
NC_009089.1\|WP_003420704.1\|158246_158924_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003432598.1\|140392_140932_+\|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein	unknown	unknown	gnl\|CDD\|274161
NC_009089.1\|WP_003420710.1\|160289_161042_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|239470
NC_009089.1\|WP_003435657.1\|119261_120128_+\|energy-coupling-factor-transporter-ATPase	unknown	unknown	gnl\|CDD\|237455

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003435660.1\|118440_119274_+\|energy-coupling-factor-transporter-ATPase	gnl\|CDD\|275313	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase. Members of this family are ATP-binding cassette (ABC) proteins by homology, but belong to energy coupling factor (ECF) transport systems. The architecture in general is two ATPase subunits (or a double-length fusion protein), a T component, and a substrate capture (S) component that is highly variable, and may be interchangeable in genomes with only one T component. This model identifies many but not examples of the upstream member of the pair of ECF ATPases in Firmicutes and Mollicutes. [Transport and binding proteins, Unknown substrate].	2.34653e-173
NC_009089.1\|WP_003420706.1\|158966_159182_+\|4Fe-4S-dicluster-domain-containing-protein	gnl\|CDD\|225131	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion].	6.6539e-10
NC_009089.1\|WP_003420711.1\|161042_161600_+\|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma	gnl\|CDD\|376567	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase. This family includes a region of the large protein pyruvate-flavodoxin oxidoreductase and the whole pyruvate ferredoxin oxidoreductase gamma subunit protein. It is not known whether the gamma subunit has a catalytic or regulatory role. Pyruvate oxidoreductase (POR) catalyzes the final step in the fermentation of carbohydrates in anaerobic microorganisms. This involves the oxidative decarboxylation of pyruvate with the participation of thiamine followed by the transfer of an acetyl moiety to coenzyme A for the synthesis of acetyl-CoA. The family also includes pyruvate flavodoxin oxidoreductase as encoded by the nifJ gene in cyanobacterium which is required for growth on molecular nitrogen when iron is limited.	1.49735e-43
NC_009089.1\|WP_003432442.1\|159210_160290_+\|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB	gnl\|CDD\|235942	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated.	0
NC_009089.1\|WP_003420702.1\|157177_158257_+\|butyrate-kinase	gnl\|CDD\|235099	PRK03011, PRK03011, butyrate kinase; Provisional.	0
NC_009089.1\|WP_011860635.1\|120121_120925_+\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	gnl\|CDD\|223692	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism].	1.25161e-50
NC_009089.1\|WP_003435654.1\|120956_121688_+\|tRNA-pseudouridine(38-40)-synthase-TruA	gnl\|CDD\|234577	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA.	6.63504e-129
NC_009089.1\|WP_021413454.1\|123117_123870_+\|N-acetylmuramoyl-L-alanine-amidase-CwlD	gnl\|CDD\|274337	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan, Cellular processes, Sporulation and germination].	1.48067e-78
NC_009089.1\|WP_009900804.1\|153983_154772_+\|TIGR00159-family-protein	gnl\|CDD\|224539	COG1624, COG1624, Uncharacterized conserved protein [Function unknown].	3.00519e-81
NC_009089.1\|WP_003421105.1\|122267_122660_+\|30S-ribosomal-protein-S9	gnl\|CDD\|178888	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed.	3.31674e-84
NC_009089.1\|WP_003421107.1\|121807_122239_+\|50S-ribosomal-protein-L13	gnl\|CDD\|181703	PRK09216, rplM, 50S ribosomal protein L13; Reviewed.	1.05591e-98
NC_009089.1\|WP_009892490.1\|136462_137647_-\|pyridoxal-phosphate-dependent-aminotransferase	gnl\|CDD\|235596	PRK05764, PRK05764, aspartate aminotransferase; Provisional.	2.82682e-180
NC_009089.1\|WP_003420701.1\|156253_157156_+\|phosphate-butyryltransferase	gnl\|CDD\|180267	PRK05805, PRK05805, phosphate butyryltransferase; Validated.	1.26101e-179
NC_009089.1\|WP_003436320.1\|138019_140371_+\|anaerobic-ribonucleoside-triphosphate-reductase	gnl\|CDD\|235937	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional.	0
NC_009089.1\|WP_011860638.1\|161769_163116_+\|phosphoglucosamine-mutase	gnl\|CDD\|237670	PRK14316, glmM, phosphoglucosamine mutase; Provisional.	0
NC_009089.1\|WP_003432439.1\|154768_155950_+\|hypothetical-protein	gnl\|CDD\|227193	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown].	1.22215e-23
NC_009089.1\|WP_003432598.1\|140392_140932_+\|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein	gnl\|CDD\|274161	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer. [Purines, pyrimidines, nucleosides, and nucleotides, 2'-Deoxyribonucleotide metabolism, Protein fate, Protein modification and repair].	3.78376e-50
NC_009089.1\|WP_003420710.1\|160289_161042_+\|MFS-transporter	gnl\|CDD\|239470	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA. In the reductive tricarboxylic acid cycle found in the anaerobic autotroph Hydrogenobacter thermophilus, OGFOR catalyzes the reductive carboxylation of succinyl-CoA to produce 2-oxoglutarate. Thauera aromatica OGFOR has been shown to provide reduced ferredoxin to benzoyl-CoA reductase, a key enzyme in the anaerobic metabolism of aromatic compounds. OGFOR is dependent on TPP and a divalent metal cation for activity.	1.15077e-77
NC_009089.1\|WP_003435657.1\|119261_120128_+\|energy-coupling-factor-transporter-ATPase	gnl\|CDD\|237455	PRK13637, cbiO, energy-coupling factor transporter ATPase.	0

>NC_009089.1|WP_003432598.1|140392_140932_+|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein
MKIRMSSTISYDSIVDGPGLRMVIWTQGCIHNCKECHNPQTHDLCGGFYMDTEEIINKVKSLKLQKGITLSGGEPFLQPEPLEEIAREAKINGLDVWSYTGFTFEQLLDKKNRAYFKNLNLLKQIDILVDGKFIAEKKDISLKFRGSSNQRIIDVQKSLKYKKVFLVEQYMKDDLSIAE
>NC_009089.1|WP_003436320.1|138019_140371_+|anaerobic-ribonucleoside-triphosphate-reductase
MVEFVKKRDGRVIPFNEDRITRAIFLAATNVAEREGIVPDYKLSEQLTQEVIKFLNHKYSESVPSVEDIQDSVVKVLIETGHAKTSEEYIIYRTERSRIRNSKTRLMKAIEEITFEDAEDADIKRENANINGNTAMGTMLQYGSTVSKEFCKTHILKPEHSFAHDNGDIHIHDMDFLNMGTLTCCQIDVKKLFNGGFSTGHGFLREPQDIISYGALAAIAIQSNQNDQHGGQSIPFFDYGLAEGVYKTFKKFYIGNLAKALKLFKGIENNDVIKNIVYNTEKETNQKVGLKRDELYLNLEKEKLIQTFDIDDELVNKMQNFAFEESYRETDKKTYQSMEAFIHNLNTMHSRAGAQVPFSSVNFGTDTSEEGRMVTKNLLLSQERGLGNGETPIFPILIFKVKEGINLNPEDPNYDLFKLSCRVSAKRLFPNFSFLDAPFNAKYYKKGEPDTEATYMGCRTRVLSNVCGSETVSGRGNISFTTVNLPRLGIKHGIINNEKANLDGFFEELDEKINLIIEQLLERLEVQGNKKMKNFPFLMGQGVWKGSDDLGPEDTLKEVIKQGTLTIGFIGLAECLIALIGKHHGESKEAQELGLKIVSHMRHKMDEATDKYKLNFSLMGTPAEGLSGRFTKIDKKVYGEIKGITDKEYYTNSFHVPVYYNISAYDKIEIEAPYHELTNAGHITYVELDGDPSDNLEAFETVIKAMKDLGIGYGSINHPVDRDPICGFSGVITSNICPVCGRNEDESDIKFERIRRITGYLVGTVDRFNNAKKAEVRDRVKHR
>NC_009089.1|WP_009892490.1|136462_137647_-|pyridoxal-phosphate-dependent-aminotransferase
MLSKRLNFITPSYTIGISSKVKEMESNGVKVINLSIGEPDFNVPNNAKSYGIDSLNKDYTKYDLVPGLKILREEICKKLIEENNCNYSIDEIVVSSGAKNSITNTLLALTDEGDEVLLPKPYWVSYPEMIKLVNAVPVFIDTKKENGFKLTKEELEKSITDKTKILVINNPSNPTGSVYTKDELIEIVDVCIQNKIYILADEIYEKICYTGEFTSIASLSEEAKDITITINGFSKSAAMTGLRLGYTASNKTIAKAMSSIQGHLISHPSLTAQYIAYGALKDCSIDIDNMVKTYKSRRDLIKSKLDSIDNVGYVNPNGAFYIFIDLSKVSEKFEYKDSFSIEFCNQFLEEYNVAVVPGIAFGMDKYIRISYACSENTFLSGLDKLKEFVYKIMA
>NC_009089.1|WP_021413454.1|123117_123870_+|N-acetylmuramoyl-L-alanine-amidase-CwlD
MEYYSVFISIHIQGDVVRKYIKHIIFSFAMICLVVVSIFEIKNISEDVIKYMPVTNKTIILDAGHGGIDPGALNKDKSTSEKDINLAITLKLRELIESSGGLVILTREDDSSLYKEENNKTTRQKYNENLKNRKEIISNSNANMFVSIHLNAFEQSKYYGAQTFYPKDKQDSKELSKCIQEELKRVVDKTNNREVKPRDDIYLLKDNNIPSVLIECGFLSNEKECKLLTDETYQEKIAWAIYIGIQKYLS
>NC_009089.1|WP_003421105.1|122267_122660_+|30S-ribosomal-protein-S9
MANVQYYGTGRRKSSVARVRLVAGEGNILVNGRALENYFNYETLIRDVKQPLVLTGNENKYDVIVKVEGGGFTGQAGAIRHGISRALLKADLDLRPALKKEGFLTRDARMKERKKYGLKAARRAPQFSKR
>NC_009089.1|WP_003421107.1|121807_122239_+|50S-ribosomal-protein-L13
MKSYIAKPADVQRKWYLVDAEGKTLGRLATEIATVLRGKHKPTFTPHVDGGDFVVVVNAEKIVLSGKKLDQKYYRYHTGYVGGLKEISYRDMMDKKPEEVISHAVSGMLPKNKLRSRMMTRLRVFAGAEHTHAAQNPEVLNFK
>NC_009089.1|WP_003435654.1|120956_121688_+|tRNA-pseudouridine(38-40)-synthase-TruA
MRNIKIKIQYNGKNYCGWQKQPDSLGIQGTIERAIYDITKEETSLIGSGRTDSGVHAIGQIANFKINSGISIESIPMALNAKLPKDISVIEACEVNDDFHSRYSAKGKTYKYLVYNSKFRNPILSEISYQVKYELDFDKMCSEAKSLLGTHDFKGFMSSGSSVKDTVRTIYDIDISKKDDLITFEISGNGFLYNMVRIIVGTLVDMGRGRINEPFLDIIQSKTRSRCGHTAPAQGLFLKKVHY
>NC_009089.1|WP_011860635.1|120121_120925_+|energy-coupling-factor-transporter-transmembrane-protein-EcfT
MLKDITIGQYYPTSSAIHKLDPRIKLVATIVFMVSIFVVNKFWPYIVVLLCLLAMIKLANIPVKYIVKGVKPLKWIILFTFLINIFFLPGDEIWSFGFLAITKQGLRQAIFMAIRLIFLVVGTSLLTLTTSPIELTDGIERLLNPFKKIGLPVHELAMMMTIALRFIPTLLDETDKIMKAQMSRGADFESKNLINRAKNLVPLLVPLFVSAFRRADELAMAMEARCYRGGHNRTKMRESVISRRDYMACVFQLVYLGAIIATRFIAI
>NC_009089.1|WP_003435657.1|119261_120128_+|energy-coupling-factor-transporter-ATPase
MSIIVKNLTHIYNEGMPFASKALDDVSFEIKDRDFVGLIGHTGSGKSTLIQHLNGLLKPSSGEIFINDFNITDKNLNLTEIRKRVGVVFQYPEYQLFEETIDKDIAFGPSNLGLEESEIHNRVKASMEAVGLDYEGFKDKSPFELSGGQKRRVAIAGVIAMNPEVLILDEPTAGLDPGGRDEIFNLIKDLHEKKNMTIILSSHSMDDMAKLAKTLIVMNHGSVEFMGTPREVFKSNASKLKDIGLDIPQVLELALKLREKGFDISEDILTLEEAKQEILKVVRGRGLC
>NC_009089.1|WP_003435660.1|118440_119274_+|energy-coupling-factor-transporter-ATPase
MDNIVKVNNISFEYITDEAKLKAIDNLSLDVKKGEFVAIIGHNGSGKSTLSKNLNAILMPTEGNILIDDMDTKEEERLWDIRQTAGMVFQNPDNQIVATIVEEDVAFGPENLGIEPKEIRRIVEESLKSVGMYDLRDRQPHLLSGGQKQRVAIAGIIAMRPKCIIFDEATAMLDPSGRKEVMKTIKRLNKEENITVIHITHFMEEAVEADRVVVMEKGKKILEGTPREVFSKIKMLKEIGLDVPCMTELSSLLIEEGINISSDILTVDEMVMELCQL
>NC_009089.1|WP_009900804.1|153983_154772_+|TIGR00159-family-protein
MSIYDLIDISIVAYIFYKIFMFIKDTRAEQVFKGIIFLLLATQLSNTFKLHTVYWISLKALDYGVIAALIIFQPEFRAGLEHIGRAKFNLFGKNVNTSEETLNRNIEEIVEALYSLSRQKIGALIIMERETRISDIINTGTIIDAEISRQLLINIFIPNTPLHDGAVVIRDSKVKAAACFLPLTESKDLSKDLGTRHRAGIGVSEVSDCITLIVSEETGGVSIAKAGKLYRDISRERMMNILRSNLKTNTETRSFFKGGIFK
>NC_009089.1|WP_003432439.1|154768_155950_+|hypothetical-protein
MINRLKNNTKIKIISFLSAIALWMYVMAVVDPEETKGFEDIPVSISNMSDLKDKNLVIYPDEKLTADVYIKGSLSKVQSVKKEDIHVYGTIEDPIQGQKEVYLKANIPQGVTLEFKHDVLVVNLEKNIKEKRDIKVEVSGNSKRNINKIELSKEFVDVSGPRTLVKEVKSVRANLDVGNETDDFSKKLQLIPLNSDGTKVEGVTLSSSFVTAKIELLKEKIVPIRVSLNDNKDNDVLKNYKLSKEQVTIKGKKEDIDKISYIKTKPIDLADLANGEEKEVSLEIPEGITLEDSSITIKLNDTKQLSAEFLYNAGDIELRNIPTNMDNPNVISDVDIKVVVESTEDLSKLNKKDISLYIDLSQGPEEDSKYKIKYETTYQFKKINIEPNIVEVE
>NC_009089.1|WP_003420701.1|156253_157156_+|phosphate-butyryltransferase
MRSFEEVIKFAKERGPKTISVACCQDKEVLMAVEMARKEKIANAILVGDIEKTKEIAKSIDMDIENYELIDIKDLAEASLKSVELVSQGKADMVMKGLVDTSIILKAVLNKEVGLRTGNVLSHVAVFDVEGYDRLFFVTDAAMNLAPDTNTKKQIIENACTVAHSLDISEPKVAAICAKEKVNPKMKDTVEAKELEEMYERGEIKGCMVGGPFAIDNAVSLEAAKHKGINHPVAGRADILLAPDIEGGNILYKALVFFSKSKNAGVIVGAKAPIILTSRADSEETKLNSIALGVLMAAKA
>NC_009089.1|WP_003420702.1|157177_158257_+|butyrate-kinase
MSKIFKILTINPGSTSTKIAVFDNEDLVFEKTLRHSSEEIGKYEKVSDQFEFRKQVIEEALKEGGVKTSELDAVVGRGGLLKPIKGGTYSVSAAMIEDLKVGVLGEHASNLGGIIAKQIGEEVNVPSYIVDPVVVDELEDVARISGMPEISRASVVHALNQKAIARRYAREINKKYEDINLIVAHMGGGVSVGAHKNGKIVDVANALDGEGPFSPERSGGLPVGALVKMCFSGKYTQDEIKKKIKGNGGLVAYLNTNDAREVEERIEAGDEKAKLVYEAMAYQISKEIGASAAVLKGDVKAILLTGGIAYSKMFTEMIADRVKFIADVKVYPGEDEMIALAQGGLRVLTGEEEAQVYDN
>NC_009089.1|WP_003420704.1|158246_158924_+|hypothetical-protein
MITNDKRIRIITGHYGSGKSEFAMNYVVKLRDMVSGKVAIADLDVVNVYFRTREKKELMKSLGIQPIDSSINAPTLDLPAVSAEVMSPMVDHSYNSVIDLGGDNVGARVIGRFSHLLKEGDYDMLFVINANREKTQTSEEVIQYIKEIEKSSKLKVTGLINNTHLIRFTTIDDVLRGQKVAKEVSEKCNIPIRYVACLENLVEQLPKDLEGEIFPIKLYMREDWM
>NC_009089.1|WP_003420706.1|158966_159182_+|4Fe-4S-dicluster-domain-containing-protein
MAKGKVSFNQERCKGCGLCVEACPVKIIQLDSNVINKKGYNPATVFEMEKCIGCASCATMCPDVVITVERD
>NC_009089.1|WP_003432442.1|159210_160290_+|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB
MAKILMKGNEAFGKAAIEAGCKYFFGYPITPQSELPEYLSRELPKIGGAFVQAESEVSAINMVYGGAGAGARVMTSSSSPGVALKQEGITYAVGAEVPCVVLNVMRGGPGLGSIQPSQADYFMSTRGGGNGDYRTPVFAPATVQEAVDMIMEAFDVADYYRSPVMVVADGMIGQMMEPVEFRAPEKKRELPPKDWATVGTKGKRKPNVINSLYLEPEVLEDHCWHLQEKFDAMEKNEVQYEMYKTEDAEFVFAAYGTTSRVVKSAIDILREEGIKAGLIRPKVLWPFPFEAFNQIPNARNILTVEMSMGQMVEDVKMAVEGKLPVYFHGRPGGMTPTPAEIVEKAKKIIAGELVAGGAR
>NC_009089.1|WP_003420710.1|160289_161042_+|MFS-transporter
MAVVFKKTEGLQDTQTHYCPGCTHGIIHRLVGEVLEELGVLGDAVGVVPVGCSVLGYKYFNCDTQEAAHGRAPAAATGIKRVHPENTVFTYQGDGDLASIGTAEIVHAAARGEKITTIFVNNTTYGMTGGQMAPTTLVGQRATTAQSGRNAETQGYPIRVSEMLATLTGAVFVERVAVDTPAHVRQAKKAIKKAFQVQQAGLGFGIVEVLSTCPTNWGLAPNDALQWLRDNMIPYYPLGNFKNVEVEEVK
>NC_009089.1|WP_003420711.1|161042_161600_+|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma
MSTARVICAGFGGQGVMSMGQLLTYAGMLEGKEVSWLPSYGPEMRGGTANCAVTVSNEPVGSPLITDDATAAILLNIPAFEKFKDDVIPGGKIIVNSSLIKEKVDRTDVDVYYIPANELAAELGNDKVANMIMLGAYLKVSDTVDIESVLEAFKKVFGPRKEKFVPLNREALQKGMDATCSKATN
>NC_009089.1|WP_011860638.1|161769_163116_+|phosphoglucosamine-mutase
MRKYFGTDGVRGVANTELTCDLAYKLGRAGGFVLAQGDHRVKVVVGKDTRISGDMLEASLIAGLMSVGCDVITVGIIPTPAVAYLTRKYGADCGVVISASHNPVEYNGIKFFNKNGYKLDDEIELKIEEYIDDIDKIDCLPIGENVGRKLHEHCAQRDYVDYLKSIISTDFKGLKVVLDCANGASYKVAPIVFDELGASVISINSSPDGNNINYKCGSTHPEQLQRAVLEHNADLGLAYDGDADRLIAVNEKGQIVDGDHIMILSALNLKKNNKLAQDTLVVTVMSNIGLTIAAKENGINLSTTAVGDRYVLEDMVKNGYNLGGEQSGHMIFLDYNTTGDGVLSSLILANIILQEKKPLSEIASIMSQYPQVLVNATIKNENKNKYMEYPEIKTEIERIESILDGNGRVLIRPSGTEPLVRVMLEGKEEGQIKELATNLANLIQEKLS

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Crispr_ID: NC_009089_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_2

143425-143514

Orphan

Consensus_repeat	Method
TGTGCGTTAGCACTTTAAGCAACAGAAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009089_2

>merge|NC_009089|2|143425-143514|CRISPRCasFinder
TGTGCGTTAGCACTTTAAGCAACAGAATAAACTGAACGCATGTGAAGTTTGTTTGTTGGCGCTGTGCGTTAGCACTTTAAGCAACGGAAT

>NC_009089|2|2|143425-143514|CRISPRCasFinder
TGTGCGTTAGCACTTTAAGCAACAGAAT	AAACTGAACGCATGTGAAGTTTGTTTGTTGGCGC
TGTGCGTTAGCACTTTAAGCAACGGAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_003435660.1\|118440_119274_+\|energy-coupling-factor-transporter-ATPase	unknown	unknown	gnl\|CDD\|275313
NC_009089.1\|WP_003420706.1\|158966_159182_+\|4Fe-4S-dicluster-domain-containing-protein	unknown	unknown	gnl\|CDD\|225131
NC_009089.1\|WP_003420711.1\|161042_161600_+\|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma	unknown	unknown	gnl\|CDD\|376567
NC_009089.1\|WP_003432442.1\|159210_160290_+\|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB	unknown	unknown	gnl\|CDD\|235942
NC_009089.1\|WP_003420702.1\|157177_158257_+\|butyrate-kinase	unknown	unknown	gnl\|CDD\|235099
NC_009089.1\|WP_011860635.1\|120121_120925_+\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	unknown	unknown	gnl\|CDD\|223692
NC_009089.1\|WP_003435654.1\|120956_121688_+\|tRNA-pseudouridine(38-40)-synthase-TruA	unknown	unknown	gnl\|CDD\|234577
NC_009089.1\|WP_021413454.1\|123117_123870_+\|N-acetylmuramoyl-L-alanine-amidase-CwlD	unknown	unknown	gnl\|CDD\|274337
NC_009089.1\|WP_009900804.1\|153983_154772_+\|TIGR00159-family-protein	unknown	unknown	gnl\|CDD\|224539
NC_009089.1\|WP_003421105.1\|122267_122660_+\|30S-ribosomal-protein-S9	unknown	unknown	gnl\|CDD\|178888
NC_009089.1\|WP_003421107.1\|121807_122239_+\|50S-ribosomal-protein-L13	unknown	unknown	gnl\|CDD\|181703
NC_009089.1\|WP_009892490.1\|136462_137647_-\|pyridoxal-phosphate-dependent-aminotransferase	unknown	unknown	gnl\|CDD\|235596
NC_009089.1\|WP_003420701.1\|156253_157156_+\|phosphate-butyryltransferase	unknown	unknown	gnl\|CDD\|180267
NC_009089.1\|WP_003436320.1\|138019_140371_+\|anaerobic-ribonucleoside-triphosphate-reductase	unknown	unknown	gnl\|CDD\|235937
NC_009089.1\|WP_011860638.1\|161769_163116_+\|phosphoglucosamine-mutase	unknown	unknown	gnl\|CDD\|237670
NC_009089.1\|WP_003432439.1\|154768_155950_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227193
NC_009089.1\|WP_003420704.1\|158246_158924_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003432598.1\|140392_140932_+\|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein	unknown	unknown	gnl\|CDD\|274161
NC_009089.1\|WP_003420710.1\|160289_161042_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|239470
NC_009089.1\|WP_003435657.1\|119261_120128_+\|energy-coupling-factor-transporter-ATPase	unknown	unknown	gnl\|CDD\|237455

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003435660.1\|118440_119274_+\|energy-coupling-factor-transporter-ATPase	gnl\|CDD\|275313	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase. Members of this family are ATP-binding cassette (ABC) proteins by homology, but belong to energy coupling factor (ECF) transport systems. The architecture in general is two ATPase subunits (or a double-length fusion protein), a T component, and a substrate capture (S) component that is highly variable, and may be interchangeable in genomes with only one T component. This model identifies many but not examples of the upstream member of the pair of ECF ATPases in Firmicutes and Mollicutes. [Transport and binding proteins, Unknown substrate].	2.34653e-173
NC_009089.1\|WP_003420706.1\|158966_159182_+\|4Fe-4S-dicluster-domain-containing-protein	gnl\|CDD\|225131	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion].	6.6539e-10
NC_009089.1\|WP_003420711.1\|161042_161600_+\|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma	gnl\|CDD\|376567	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase. This family includes a region of the large protein pyruvate-flavodoxin oxidoreductase and the whole pyruvate ferredoxin oxidoreductase gamma subunit protein. It is not known whether the gamma subunit has a catalytic or regulatory role. Pyruvate oxidoreductase (POR) catalyzes the final step in the fermentation of carbohydrates in anaerobic microorganisms. This involves the oxidative decarboxylation of pyruvate with the participation of thiamine followed by the transfer of an acetyl moiety to coenzyme A for the synthesis of acetyl-CoA. The family also includes pyruvate flavodoxin oxidoreductase as encoded by the nifJ gene in cyanobacterium which is required for growth on molecular nitrogen when iron is limited.	1.49735e-43
NC_009089.1\|WP_003432442.1\|159210_160290_+\|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB	gnl\|CDD\|235942	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated.	0
NC_009089.1\|WP_003420702.1\|157177_158257_+\|butyrate-kinase	gnl\|CDD\|235099	PRK03011, PRK03011, butyrate kinase; Provisional.	0
NC_009089.1\|WP_011860635.1\|120121_120925_+\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	gnl\|CDD\|223692	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism].	1.25161e-50
NC_009089.1\|WP_003435654.1\|120956_121688_+\|tRNA-pseudouridine(38-40)-synthase-TruA	gnl\|CDD\|234577	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA.	6.63504e-129
NC_009089.1\|WP_021413454.1\|123117_123870_+\|N-acetylmuramoyl-L-alanine-amidase-CwlD	gnl\|CDD\|274337	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan, Cellular processes, Sporulation and germination].	1.48067e-78
NC_009089.1\|WP_009900804.1\|153983_154772_+\|TIGR00159-family-protein	gnl\|CDD\|224539	COG1624, COG1624, Uncharacterized conserved protein [Function unknown].	3.00519e-81
NC_009089.1\|WP_003421105.1\|122267_122660_+\|30S-ribosomal-protein-S9	gnl\|CDD\|178888	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed.	3.31674e-84
NC_009089.1\|WP_003421107.1\|121807_122239_+\|50S-ribosomal-protein-L13	gnl\|CDD\|181703	PRK09216, rplM, 50S ribosomal protein L13; Reviewed.	1.05591e-98
NC_009089.1\|WP_009892490.1\|136462_137647_-\|pyridoxal-phosphate-dependent-aminotransferase	gnl\|CDD\|235596	PRK05764, PRK05764, aspartate aminotransferase; Provisional.	2.82682e-180
NC_009089.1\|WP_003420701.1\|156253_157156_+\|phosphate-butyryltransferase	gnl\|CDD\|180267	PRK05805, PRK05805, phosphate butyryltransferase; Validated.	1.26101e-179
NC_009089.1\|WP_003436320.1\|138019_140371_+\|anaerobic-ribonucleoside-triphosphate-reductase	gnl\|CDD\|235937	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional.	0
NC_009089.1\|WP_011860638.1\|161769_163116_+\|phosphoglucosamine-mutase	gnl\|CDD\|237670	PRK14316, glmM, phosphoglucosamine mutase; Provisional.	0
NC_009089.1\|WP_003432439.1\|154768_155950_+\|hypothetical-protein	gnl\|CDD\|227193	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown].	1.22215e-23
NC_009089.1\|WP_003432598.1\|140392_140932_+\|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein	gnl\|CDD\|274161	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer. [Purines, pyrimidines, nucleosides, and nucleotides, 2'-Deoxyribonucleotide metabolism, Protein fate, Protein modification and repair].	3.78376e-50
NC_009089.1\|WP_003420710.1\|160289_161042_+\|MFS-transporter	gnl\|CDD\|239470	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA. In the reductive tricarboxylic acid cycle found in the anaerobic autotroph Hydrogenobacter thermophilus, OGFOR catalyzes the reductive carboxylation of succinyl-CoA to produce 2-oxoglutarate. Thauera aromatica OGFOR has been shown to provide reduced ferredoxin to benzoyl-CoA reductase, a key enzyme in the anaerobic metabolism of aromatic compounds. OGFOR is dependent on TPP and a divalent metal cation for activity.	1.15077e-77
NC_009089.1\|WP_003435657.1\|119261_120128_+\|energy-coupling-factor-transporter-ATPase	gnl\|CDD\|237455	PRK13637, cbiO, energy-coupling factor transporter ATPase.	0

>NC_009089.1|WP_003432598.1|140392_140932_+|anaerobic-ribonucleoside-triphosphate-reductase-activating-protein
MKIRMSSTISYDSIVDGPGLRMVIWTQGCIHNCKECHNPQTHDLCGGFYMDTEEIINKVKSLKLQKGITLSGGEPFLQPEPLEEIAREAKINGLDVWSYTGFTFEQLLDKKNRAYFKNLNLLKQIDILVDGKFIAEKKDISLKFRGSSNQRIIDVQKSLKYKKVFLVEQYMKDDLSIAE
>NC_009089.1|WP_003436320.1|138019_140371_+|anaerobic-ribonucleoside-triphosphate-reductase
MVEFVKKRDGRVIPFNEDRITRAIFLAATNVAEREGIVPDYKLSEQLTQEVIKFLNHKYSESVPSVEDIQDSVVKVLIETGHAKTSEEYIIYRTERSRIRNSKTRLMKAIEEITFEDAEDADIKRENANINGNTAMGTMLQYGSTVSKEFCKTHILKPEHSFAHDNGDIHIHDMDFLNMGTLTCCQIDVKKLFNGGFSTGHGFLREPQDIISYGALAAIAIQSNQNDQHGGQSIPFFDYGLAEGVYKTFKKFYIGNLAKALKLFKGIENNDVIKNIVYNTEKETNQKVGLKRDELYLNLEKEKLIQTFDIDDELVNKMQNFAFEESYRETDKKTYQSMEAFIHNLNTMHSRAGAQVPFSSVNFGTDTSEEGRMVTKNLLLSQERGLGNGETPIFPILIFKVKEGINLNPEDPNYDLFKLSCRVSAKRLFPNFSFLDAPFNAKYYKKGEPDTEATYMGCRTRVLSNVCGSETVSGRGNISFTTVNLPRLGIKHGIINNEKANLDGFFEELDEKINLIIEQLLERLEVQGNKKMKNFPFLMGQGVWKGSDDLGPEDTLKEVIKQGTLTIGFIGLAECLIALIGKHHGESKEAQELGLKIVSHMRHKMDEATDKYKLNFSLMGTPAEGLSGRFTKIDKKVYGEIKGITDKEYYTNSFHVPVYYNISAYDKIEIEAPYHELTNAGHITYVELDGDPSDNLEAFETVIKAMKDLGIGYGSINHPVDRDPICGFSGVITSNICPVCGRNEDESDIKFERIRRITGYLVGTVDRFNNAKKAEVRDRVKHR
>NC_009089.1|WP_009892490.1|136462_137647_-|pyridoxal-phosphate-dependent-aminotransferase
MLSKRLNFITPSYTIGISSKVKEMESNGVKVINLSIGEPDFNVPNNAKSYGIDSLNKDYTKYDLVPGLKILREEICKKLIEENNCNYSIDEIVVSSGAKNSITNTLLALTDEGDEVLLPKPYWVSYPEMIKLVNAVPVFIDTKKENGFKLTKEELEKSITDKTKILVINNPSNPTGSVYTKDELIEIVDVCIQNKIYILADEIYEKICYTGEFTSIASLSEEAKDITITINGFSKSAAMTGLRLGYTASNKTIAKAMSSIQGHLISHPSLTAQYIAYGALKDCSIDIDNMVKTYKSRRDLIKSKLDSIDNVGYVNPNGAFYIFIDLSKVSEKFEYKDSFSIEFCNQFLEEYNVAVVPGIAFGMDKYIRISYACSENTFLSGLDKLKEFVYKIMA
>NC_009089.1|WP_021413454.1|123117_123870_+|N-acetylmuramoyl-L-alanine-amidase-CwlD
MEYYSVFISIHIQGDVVRKYIKHIIFSFAMICLVVVSIFEIKNISEDVIKYMPVTNKTIILDAGHGGIDPGALNKDKSTSEKDINLAITLKLRELIESSGGLVILTREDDSSLYKEENNKTTRQKYNENLKNRKEIISNSNANMFVSIHLNAFEQSKYYGAQTFYPKDKQDSKELSKCIQEELKRVVDKTNNREVKPRDDIYLLKDNNIPSVLIECGFLSNEKECKLLTDETYQEKIAWAIYIGIQKYLS
>NC_009089.1|WP_003421105.1|122267_122660_+|30S-ribosomal-protein-S9
MANVQYYGTGRRKSSVARVRLVAGEGNILVNGRALENYFNYETLIRDVKQPLVLTGNENKYDVIVKVEGGGFTGQAGAIRHGISRALLKADLDLRPALKKEGFLTRDARMKERKKYGLKAARRAPQFSKR
>NC_009089.1|WP_003421107.1|121807_122239_+|50S-ribosomal-protein-L13
MKSYIAKPADVQRKWYLVDAEGKTLGRLATEIATVLRGKHKPTFTPHVDGGDFVVVVNAEKIVLSGKKLDQKYYRYHTGYVGGLKEISYRDMMDKKPEEVISHAVSGMLPKNKLRSRMMTRLRVFAGAEHTHAAQNPEVLNFK
>NC_009089.1|WP_003435654.1|120956_121688_+|tRNA-pseudouridine(38-40)-synthase-TruA
MRNIKIKIQYNGKNYCGWQKQPDSLGIQGTIERAIYDITKEETSLIGSGRTDSGVHAIGQIANFKINSGISIESIPMALNAKLPKDISVIEACEVNDDFHSRYSAKGKTYKYLVYNSKFRNPILSEISYQVKYELDFDKMCSEAKSLLGTHDFKGFMSSGSSVKDTVRTIYDIDISKKDDLITFEISGNGFLYNMVRIIVGTLVDMGRGRINEPFLDIIQSKTRSRCGHTAPAQGLFLKKVHY
>NC_009089.1|WP_011860635.1|120121_120925_+|energy-coupling-factor-transporter-transmembrane-protein-EcfT
MLKDITIGQYYPTSSAIHKLDPRIKLVATIVFMVSIFVVNKFWPYIVVLLCLLAMIKLANIPVKYIVKGVKPLKWIILFTFLINIFFLPGDEIWSFGFLAITKQGLRQAIFMAIRLIFLVVGTSLLTLTTSPIELTDGIERLLNPFKKIGLPVHELAMMMTIALRFIPTLLDETDKIMKAQMSRGADFESKNLINRAKNLVPLLVPLFVSAFRRADELAMAMEARCYRGGHNRTKMRESVISRRDYMACVFQLVYLGAIIATRFIAI
>NC_009089.1|WP_003435657.1|119261_120128_+|energy-coupling-factor-transporter-ATPase
MSIIVKNLTHIYNEGMPFASKALDDVSFEIKDRDFVGLIGHTGSGKSTLIQHLNGLLKPSSGEIFINDFNITDKNLNLTEIRKRVGVVFQYPEYQLFEETIDKDIAFGPSNLGLEESEIHNRVKASMEAVGLDYEGFKDKSPFELSGGQKRRVAIAGVIAMNPEVLILDEPTAGLDPGGRDEIFNLIKDLHEKKNMTIILSSHSMDDMAKLAKTLIVMNHGSVEFMGTPREVFKSNASKLKDIGLDIPQVLELALKLREKGFDISEDILTLEEAKQEILKVVRGRGLC
>NC_009089.1|WP_003435660.1|118440_119274_+|energy-coupling-factor-transporter-ATPase
MDNIVKVNNISFEYITDEAKLKAIDNLSLDVKKGEFVAIIGHNGSGKSTLSKNLNAILMPTEGNILIDDMDTKEEERLWDIRQTAGMVFQNPDNQIVATIVEEDVAFGPENLGIEPKEIRRIVEESLKSVGMYDLRDRQPHLLSGGQKQRVAIAGIIAMRPKCIIFDEATAMLDPSGRKEVMKTIKRLNKEENITVIHITHFMEEAVEADRVVVMEKGKKILEGTPREVFSKIKMLKEIGLDVPCMTELSSLLIEEGINISSDILTVDEMVMELCQL
>NC_009089.1|WP_009900804.1|153983_154772_+|TIGR00159-family-protein
MSIYDLIDISIVAYIFYKIFMFIKDTRAEQVFKGIIFLLLATQLSNTFKLHTVYWISLKALDYGVIAALIIFQPEFRAGLEHIGRAKFNLFGKNVNTSEETLNRNIEEIVEALYSLSRQKIGALIIMERETRISDIINTGTIIDAEISRQLLINIFIPNTPLHDGAVVIRDSKVKAAACFLPLTESKDLSKDLGTRHRAGIGVSEVSDCITLIVSEETGGVSIAKAGKLYRDISRERMMNILRSNLKTNTETRSFFKGGIFK
>NC_009089.1|WP_003432439.1|154768_155950_+|hypothetical-protein
MINRLKNNTKIKIISFLSAIALWMYVMAVVDPEETKGFEDIPVSISNMSDLKDKNLVIYPDEKLTADVYIKGSLSKVQSVKKEDIHVYGTIEDPIQGQKEVYLKANIPQGVTLEFKHDVLVVNLEKNIKEKRDIKVEVSGNSKRNINKIELSKEFVDVSGPRTLVKEVKSVRANLDVGNETDDFSKKLQLIPLNSDGTKVEGVTLSSSFVTAKIELLKEKIVPIRVSLNDNKDNDVLKNYKLSKEQVTIKGKKEDIDKISYIKTKPIDLADLANGEEKEVSLEIPEGITLEDSSITIKLNDTKQLSAEFLYNAGDIELRNIPTNMDNPNVISDVDIKVVVESTEDLSKLNKKDISLYIDLSQGPEEDSKYKIKYETTYQFKKINIEPNIVEVE
>NC_009089.1|WP_003420701.1|156253_157156_+|phosphate-butyryltransferase
MRSFEEVIKFAKERGPKTISVACCQDKEVLMAVEMARKEKIANAILVGDIEKTKEIAKSIDMDIENYELIDIKDLAEASLKSVELVSQGKADMVMKGLVDTSIILKAVLNKEVGLRTGNVLSHVAVFDVEGYDRLFFVTDAAMNLAPDTNTKKQIIENACTVAHSLDISEPKVAAICAKEKVNPKMKDTVEAKELEEMYERGEIKGCMVGGPFAIDNAVSLEAAKHKGINHPVAGRADILLAPDIEGGNILYKALVFFSKSKNAGVIVGAKAPIILTSRADSEETKLNSIALGVLMAAKA
>NC_009089.1|WP_003420702.1|157177_158257_+|butyrate-kinase
MSKIFKILTINPGSTSTKIAVFDNEDLVFEKTLRHSSEEIGKYEKVSDQFEFRKQVIEEALKEGGVKTSELDAVVGRGGLLKPIKGGTYSVSAAMIEDLKVGVLGEHASNLGGIIAKQIGEEVNVPSYIVDPVVVDELEDVARISGMPEISRASVVHALNQKAIARRYAREINKKYEDINLIVAHMGGGVSVGAHKNGKIVDVANALDGEGPFSPERSGGLPVGALVKMCFSGKYTQDEIKKKIKGNGGLVAYLNTNDAREVEERIEAGDEKAKLVYEAMAYQISKEIGASAAVLKGDVKAILLTGGIAYSKMFTEMIADRVKFIADVKVYPGEDEMIALAQGGLRVLTGEEEAQVYDN
>NC_009089.1|WP_003420704.1|158246_158924_+|hypothetical-protein
MITNDKRIRIITGHYGSGKSEFAMNYVVKLRDMVSGKVAIADLDVVNVYFRTREKKELMKSLGIQPIDSSINAPTLDLPAVSAEVMSPMVDHSYNSVIDLGGDNVGARVIGRFSHLLKEGDYDMLFVINANREKTQTSEEVIQYIKEIEKSSKLKVTGLINNTHLIRFTTIDDVLRGQKVAKEVSEKCNIPIRYVACLENLVEQLPKDLEGEIFPIKLYMREDWM
>NC_009089.1|WP_003420706.1|158966_159182_+|4Fe-4S-dicluster-domain-containing-protein
MAKGKVSFNQERCKGCGLCVEACPVKIIQLDSNVINKKGYNPATVFEMEKCIGCASCATMCPDVVITVERD
>NC_009089.1|WP_003432442.1|159210_160290_+|3-methyl-2-oxobutanoate-dehydrogenase-subunit-VorB
MAKILMKGNEAFGKAAIEAGCKYFFGYPITPQSELPEYLSRELPKIGGAFVQAESEVSAINMVYGGAGAGARVMTSSSSPGVALKQEGITYAVGAEVPCVVLNVMRGGPGLGSIQPSQADYFMSTRGGGNGDYRTPVFAPATVQEAVDMIMEAFDVADYYRSPVMVVADGMIGQMMEPVEFRAPEKKRELPPKDWATVGTKGKRKPNVINSLYLEPEVLEDHCWHLQEKFDAMEKNEVQYEMYKTEDAEFVFAAYGTTSRVVKSAIDILREEGIKAGLIRPKVLWPFPFEAFNQIPNARNILTVEMSMGQMVEDVKMAVEGKLPVYFHGRPGGMTPTPAEIVEKAKKIIAGELVAGGAR
>NC_009089.1|WP_003420710.1|160289_161042_+|MFS-transporter
MAVVFKKTEGLQDTQTHYCPGCTHGIIHRLVGEVLEELGVLGDAVGVVPVGCSVLGYKYFNCDTQEAAHGRAPAAATGIKRVHPENTVFTYQGDGDLASIGTAEIVHAAARGEKITTIFVNNTTYGMTGGQMAPTTLVGQRATTAQSGRNAETQGYPIRVSEMLATLTGAVFVERVAVDTPAHVRQAKKAIKKAFQVQQAGLGFGIVEVLSTCPTNWGLAPNDALQWLRDNMIPYYPLGNFKNVEVEEVK
>NC_009089.1|WP_003420711.1|161042_161600_+|2-oxoglutarate-ferredoxin-oxidoreductase-subunit-gamma
MSTARVICAGFGGQGVMSMGQLLTYAGMLEGKEVSWLPSYGPEMRGGTANCAVTVSNEPVGSPLITDDATAAILLNIPAFEKFKDDVIPGGKIIVNSSLIKEKVDRTDVDVYYIPANELAAELGNDKVANMIMLGAYLKVSDTVDIESVLEAFKKVFGPRKEKFVPLNREALQKGMDATCSKATN
>NC_009089.1|WP_011860638.1|161769_163116_+|phosphoglucosamine-mutase
MRKYFGTDGVRGVANTELTCDLAYKLGRAGGFVLAQGDHRVKVVVGKDTRISGDMLEASLIAGLMSVGCDVITVGIIPTPAVAYLTRKYGADCGVVISASHNPVEYNGIKFFNKNGYKLDDEIELKIEEYIDDIDKIDCLPIGENVGRKLHEHCAQRDYVDYLKSIISTDFKGLKVVLDCANGASYKVAPIVFDELGASVISINSSPDGNNINYKCGSTHPEQLQRAVLEHNADLGLAYDGDADRLIAVNEKGQIVDGDHIMILSALNLKKNNKLAQDTLVVTVMSNIGLTIAAKENGINLSTTAVGDRYVLEDMVKNGYNLGGEQSGHMIFLDYNTTGDGVLSSLILANIILQEKKPLSEIASIMSQYPQVLVNATIKNENKNKYMEYPEIKTEIERIESILDGNGRVLIRPSGTEPLVRVMLEGKEEGQIKELATNLANLIQEKLS

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Crispr_ID: NC_009089_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_4

1125594-1125820

Orphan

I-A

Consensus_repeat	Method
GTTTTAGATTAACTATATGGAATGTAAAT	CRISPRCasFinder
TTTTATATTAACTAAGTGGTATGTAAAG	PILER-CR

3 spacers

The CRISPR arrays of NC_009089_4

>merge|NC_009089|4|1125594-1125820|CRISPRCasFinder,PILER-CR
GAGTTATATTAACTAAGTGGTATGTAAAGGTTTGAGAACGCTGTATAAAGCTTGTAGCTAGTTCTTGTTTTATATTAACTAAGTGGTATGTAAAGGTTGCATCATTAAATATTTTCCCTACAAACTCTTTTCATTTTATATTAACTATGTGGTATGTAAATAGTACATACAAAGAGTCTATAAAATTATCTATAAAGGGTTTTATATTAACTATGTGGACTTAAAAT

>NC_009089|4|4|1125594-1125820|CRISPRCasFinder
GAGTTATATTAACTAAGTGGTATGTAAAG	GTTTGAGAACGCTGTATAAAGCTTGTAGCTAGTTCTT
GTTTTATATTAACTAAGTGGTATGTAAAG	GTTGCATCATTAAATATTTTCCCTACAAACTCTTTTC
ATTTTATATTAACTATGTGGTATGTAAAT	AGTACATACAAAGAGTCTATAAAATTATCTATAAAGG
GTTTTATATTAACTATGTGGACTTAAAAT

>NC_009089|4|2|1125597-1125754|PILER-CR
TTATATTAACTAAGTGGTATGTAAAGGT	TTGAGAACGCTGTATAAAGCTTGTAGCTAGTTCTTGTT
TTATATTAACTAAGTGGTATGTAAAGGT	TGCATCATTAAATATTTTCCCTACAAACTCTTTTCATT
TTATATTAACTATGTGGTATGTAAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861030.1\|1120448_1120874_+\|HK97-gp10-family-phage-protein	unknown	unknown	gnl\|CDD\|377415
NC_009089.1\|WP_011861039.1\|1132491_1132911_+\|DUF2634-domain-containing-protein	unknown	unknown	gnl\|CDD\|378510
NC_009089.1\|WP_003429853.1\|1123343_1123784_+\|phage-portal-protein	unknown	unknown	gnl\|CDD\|378084
NC_009089.1\|WP_003429844.1\|1120101_1120449_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861042.1\|1134582_1135386_+\|phage-tail-protein	unknown	unknown	gnl\|CDD\|372197
NC_009089.1\|WP_003429855.1\|1124124_1124286_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009888836.1\|1119706_1120108_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861037.1\|1129560_1130250_+\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|236880
NC_009089.1\|WP_009901352.1\|1132226_1132487_+\|DUF2577-domain-containing-protein	unknown	unknown	gnl\|CDD\|378501
NC_009089.1\|WP_011861031.1\|1121296_1121473_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861034.1\|1125949_1126510_+\|lipoprotein	unknown	unknown	unknown
NC_009089.1\|WP_011861038.1\|1130242_1132213_+\|cell-wall-hydrolase	unknown	unknown	gnl\|CDD\|366353
NC_009089.1\|WP_009901504.1\|1120866_1121304_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861032.1\|1121474_1122785_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377435
NC_009089.1\|WP_011861040.1\|1132911_1133961_+\|baseplate-J/gp47-family-protein	unknown	unknown	gnl\|CDD\|377414
NC_009089.1\|WP_011861035.1\|1126553_1127123_+\|zinc-ribbon-domain-containing-protein	unknown	unknown	gnl\|CDD\|236014
NC_009089.1\|WP_011861041.1\|1133953_1134571_+\|YmfQ-family-protein	unknown	unknown	gnl\|CDD\|378379
NC_009089.1\|WP_003429851.1\|1122801_1123272_+\|phage-tail-tube-protein	unknown	unknown	gnl\|CDD\|378178
NC_009089.1\|WP_009896624.1\|1119463_1119697_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274765
NC_009089.1\|WP_011861036.1\|1127193_1129545_+\|tape-measure-protein	unknown	unknown	gnl\|CDD\|131723

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861030.1\|1120448_1120874_+\|HK97-gp10-family-phage-protein	gnl\|CDD\|377415	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component. This family of proteins is found in the caudovirales. It may be a tail component.	2.86254e-17
NC_009089.1\|WP_011861039.1\|1132491_1132911_+\|DUF2634-domain-containing-protein	gnl\|CDD\|378510	pfam10934, DUF2634, Protein of unknown function (DUF2634). Some members in this family of proteins are annotated as phage related, xkdS however currently there is no known function.	1.81684e-36
NC_009089.1\|WP_003429853.1\|1123343_1123784_+\|phage-portal-protein	gnl\|CDD\|378084	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC. This is a family of phage tail assembly chaperone proteins, TACs, from Gram-positive bacteriophages, in particular PBSX from Firmicutes.	8.20802e-57
NC_009089.1\|WP_009901352.1\|1132226_1132487_+\|DUF2577-domain-containing-protein	gnl\|CDD\|378501	pfam10844, DUF2577, Protein of unknown function (DUF2577). This family of proteins has no known function.	1.7145e-19
NC_009089.1\|WP_011861036.1\|1127193_1129545_+\|tape-measure-protein	gnl\|CDD\|131723	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain. Proteins containing this domain are strictly bacterial, including bacteriophage and prophage regions of bacterial genomes. Most members are 800 to 1800 amino acids long, making them among the longest predicted proteins of their respective phage genomes, where they are encoded in tail protein regions. This roughly 80-residue domain described here usually begins between residue 100 and 250. Many members are known or predicted to act as phage tail tape measure proteins, a minor tail component that regulates tail length.	1.61877e-16
NC_009089.1\|WP_011861042.1\|1134582_1135386_+\|phage-tail-protein	gnl\|CDD\|372197	pfam12571, DUF3751, Phage tail-collar fibre protein. This domain family is found in bacteria and viruses, and is approximately 160 amino acids in length. There are two completely conserved residues (K and W) that may be functionally important. The members are annotated as being putative phage tail or tail-collar proteins.	1.66977e-58
NC_009089.1\|WP_011861038.1\|1130242_1132213_+\|cell-wall-hydrolase	gnl\|CDD\|366353	pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.	3.23294e-31
NC_009089.1\|WP_011861032.1\|1121474_1122785_+\|hypothetical-protein	gnl\|CDD\|377435	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain. This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	3.90974e-37
NC_009089.1\|WP_011861040.1\|1132911_1133961_+\|baseplate-J/gp47-family-protein	gnl\|CDD\|377414	pfam04865, Baseplate_J, Baseplate J-like protein. The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologs, which are thought to have been horizontally transferred.	6.54674e-50
NC_009089.1\|WP_003429851.1\|1122801_1123272_+\|phage-tail-tube-protein	gnl\|CDD\|378178	pfam09393, DUF2001, Phage tail tube protein. This is a family of phage tail tube proteins including protein XkdM from phage-like element PBSX protein whose structure adopts a beta barrel flanked with alpha helical regions.	2.40208e-57
NC_009089.1\|WP_011861041.1\|1133953_1134571_+\|YmfQ-family-protein	gnl\|CDD\|378379	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313). Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins.	7.80829e-43
NC_009089.1\|WP_011861035.1\|1126553_1127123_+\|zinc-ribbon-domain-containing-protein	gnl\|CDD\|236014	PRK07418, PRK07418, acetolactate synthase large subunit.	0.000331623
NC_009089.1\|WP_009896624.1\|1119463_1119697_+\|hypothetical-protein	gnl\|CDD\|274765	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition. [Mobile and extrachromosomal element functions, Plasmid functions].	0.000139844
NC_009089.1\|WP_011861037.1\|1129560_1130250_+\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|236880	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional.	3.86484e-11

>NC_009089.1|WP_003429855.1|1124124_1124286_+|hypothetical-protein
MNNFLLNVIAGVIASLIFCLICKVFLKVKSHSTRGKSKSGWEFDFKIKFHKFK
>NC_009089.1|WP_003429853.1|1123343_1123784_+|phage-portal-protein
MSNLSAFLSQNAIKVDNVKYVASNRFLDKEGKPVEWELKVLSSEEDEALRRKCTKRVKVIGNNGKHTGQYTSEIDYNSYVAELCVASTVFPDLKDAELQNSYGVMGEAQLLKTMLTAGEYVNYTVKVNEVNGFDTSFEDKVEEAKN
>NC_009089.1|WP_003429851.1|1122801_1123272_+|phage-tail-tube-protein
MAQTINAKDTVSAKKAECFITIEGKRYNFMQAIDLEAKMEKNKSEVPILGRTTKGNKTTGSTNTGSATFHYNTSIFRELLYRYKETGEDIYFDIQVTNEDPTSAVGRQTVVLKDCNMDSGIITKFDADGEYLDEDMDFTFEDWELVEKFNLLAGME
>NC_009089.1|WP_011861032.1|1121474_1122785_+|hypothetical-protein
MALGGGTFVTQNKILPGSYINFISAKRATSSLSDRGIVAIPLELDWGIDEDVFQVTSDDFEKYSVKYFGYDYTHEKLKGLRDLFKNIRLGYFYKLNKGVKASCTIATAKYSGIRGNDLKVTVTTNIDDNAKFDVVTLLDNKKVDTQIAKVITDLQDNDYITWKKDATLEASAGLVFTGGTNGEAVTGAEYQAFLDKIESYSFNALGCLATTTEIKSLFVEFTKRMRDKVGAKFQTVLYKKSDADYEGVVSVENKIKEIGLVESSLIYWAAGAIAGCDINKSNTNKKYDGEFDVDVNYTQIQLEEALKTGKFIFHKVGDEVHVLEDINTFVSFTDDKNDDFSSNQSVRVLDQIANDIATLFNEKYLGKVPNDKAGRISFWNDVVKHHKELENIRAIEDFKTDDVSVELGNDKKTVIVSDAVKVINAMSKLYMTVSVN
>NC_009089.1|WP_011861031.1|1121296_1121473_+|hypothetical-protein
MNKTLSKEDNYKFTKEQIVNSKKYVNRKDLLNAILKENDLYSFSEVEEIINSFMKGVS
>NC_009089.1|WP_009901504.1|1120866_1121304_+|hypothetical-protein
MLNNIIDGISVKLDKSFGEKYTIYSEDVEQGINEPCFFIVPLNPSKTPYPSGRELKKNSFDVHYFPHSEDKNFEINEIAEMLLEELEYIEIDGDLVRGTNMNFEIIDNVLHFFVDYNYFTIKSNDTDKMDTVELFGGLKRGDNFE
>NC_009089.1|WP_011861030.1|1120448_1120874_+|HK97-gp10-family-phage-protein
MARWGSVDFREFKRVCKKMEELTKIDLDKFCKDAARELAARLLGKVIRRTPVDTGFLRQGWNGVAYARSLPVYKQGNNYIIEVVNPTEYASYVEYGHRTKGGKGWVKGQHFLTISEMELQGQVDKIIEKKLLILLKGVFDA
>NC_009089.1|WP_003429844.1|1120101_1120449_+|hypothetical-protein
MVSKTRKAIEMLYRDKCTIVEYQPIKDPVTKRTNNKEVIVLENQPCKLSYKNIVSATEGKVAKLEQTIKLFISPDIEIKAGSKLIINDKEYVRSGESAIYPNHQEIILELFKDKA
>NC_009089.1|WP_009888836.1|1119706_1120108_+|hypothetical-protein
MENNIIDEIEKRLESFGYILKDGDKWLIGFVREKIENIIKLDCNIKTMPIELKEIEVDMIVGEFLFTKKNMGQLDIESINFEAVEKSISEGDTKVDFAIGSGSQTPEQRFDSLIAYLTTYGKNKILTFRCLRW
>NC_009089.1|WP_009896624.1|1119463_1119697_+|hypothetical-protein
MAQVRKLNRILTIEECKIDDFLEMGYDLIDETGKAVKYGKSLNVKDLIAENNILRSKVESLEEENKQLKEKNKLTKK
>NC_009089.1|WP_011861034.1|1125949_1126510_+|lipoprotein
MKKKVCFLFSILIVICLAIVGCSNSESPEESSKNNEPKKEEKKDKEVVIGEKIISDKMEITINNIEFSYDVLPKVKESLYTHYPAESGKVYIDIAADIKNTQKQELNCSDLLTIEANYNDGYKYSSQTIVEDETTGFTYDNISSIDPLETKGVRFIIDCPDEVKTSDKPVILSFTFDGNKYVYKMK
>NC_009089.1|WP_011861035.1|1126553_1127123_+|zinc-ribbon-domain-containing-protein
MDDIVEYIFCSECGAKCLKGSKFCSECGTEIADIKMLNESIIKEKEYDLKGIDLQHVMQETSFIKASSVRRLKELTGIELDDCRKILEEPYQKYYNENADMLEEKRKKEDDISKIRKAKEEKKEKEKIACCPACGSTSLTTHKKGFGIGKAITGATIAGGIGLVAGNIGAKKVRVTCLNCGKQFWAGKK
>NC_009089.1|WP_011861036.1|1127193_1129545_+|tape-measure-protein
MATIQTSIRIFDGMTPAFRNMTTSINTTINSLERLQGRLNNPLNTGGIQTSQQSLNNIESILTRIEQSIGKADEQQRKFNDDINKGASNTDRLLGSVKKVVGTYMGLKTIGGLANLSDQMTSTNARLNMINDGQLSDGGLNKMIFQSAERSRASYLDTAQIVSRIGMNAGSAFSSTREIVSFAEQLNKKFVIAGASTEEMNSALLQLTQGLGSGVLRGEELNAVFESAPNIIKSIADYLDVDIGKIRGMASEGMLTADIVKNSLLAASAETNAQFEKMPLTIGQIFTSIKNNAVMIFGAIQKKIEDTVSSGGFRTFIVNVTDSLYVLGAVGYSVFNGFIDLLSSPTFQGFANMMIVGISLITQGFGWLLTVLGSVINFISQGWSIIQPILITSIVLWGLYKTAVIAGALVTAIQVVWIALQTFWTNLLNGSLLTNIMMNIAAKISTDALSGSMLLLITTIVMVVAAVALVIAAIFVAVAIFNHFAGTSISATGVVVGAFYFLGTCIYDVFAGAWNIVMAFAEFFVNSFNIVIYNVQLLFYKFQNFVINAMGDVGGSFDNCATALANAFVSAANIAIKGINGVIKTLNLIPGVNIKTFGSLDKIDSFVKQYKDYQKTLKEPVKPAEWKAPTMKLKNPVDSFKKGYEVGQNLENKIKDAFDISKIAEKAKKDLGLDDLWDDKYGLGDRFGSAGLNSPLNNAAKGAKDTAGNTAKMAKTMDKSQEDLKYLRDIAEQETINRFTGVNIKIDMNNTNNISKDTDVDGIVNVLTEKLNDAMVVSAEGIV
>NC_009089.1|WP_011861037.1|1129560_1130250_+|LysM-peptidoglycan-binding-domain-containing-protein
MAYDFYLDGVQLPIPPPKLEIKVTNKNKTVDLINTGEVNILKKEGLSEISFEAEFTHNKLPFYRGAFRDVQFFLSKLELLKTDCKPFQFIVSREMGGKVLFNTNIKVSLEEYAISEDADNGSDTKVAIKLKQYRDYSTKKLVLAPPKNETGRPNVKIEPKRVDSVNATNTKTYTVKAGDSLWSICQKQLGNGSLYKKVYELNKSMMDKANKGKNLSKYTIYKGQVLKLG
>NC_009089.1|WP_011861038.1|1130242_1132213_+|cell-wall-hydrolase
MVDELVLANDRDVRLVIAHWEDFYEPAVIDGITWEIERRGTPSKLEFTIVMDDILEFCEGNSVRLYYKGIGIFYGYIFQKKRDKENHIKIVAYDQLRYFKNKDTYVYSNKTASELVKMLAKDFNLKYNVIEDTKYKISRVEENKTLFDMILTALDDTLREKKEMYVLYDDFGRITLKNVASMKLDTVMNNDVIEDFDYNSSIDSDTYTKIKLVRDNEESGKRDVYIAQDSAHMRSWGILQMFDTVDKNMSEAEIKQKCDILLKLYNKKTKSLSLKNALGDIRVRAGCLVPVFLDLGDIDLQNYMLVEKVKHTFENNSHFMDLTLVDGDEFASYSSSSYSSGNSNNKDEKKNGPAQSTTSKEDNDMINKLNKVFKNKLSNTGNIFVKYSNAYKVNAALMAAISIHETGNGSSSLCKNKNNFFGMKGMSFGSVDEGIKRGISNLSRNYIHTGRKTLESIRDKYAPLYDSPLNKDWVPGVGKFYKQITGNAYSSNSAGTGVGSNEEAEKNLKDTTYQVQNNNSNTLTNNNSKVSKVIQEAKNQLGKPYAWGGNGPKSFDCSGLMVWAFKRGAGINLKRVSADQSKDSRGKLLCNINDVKAGDLVFFAYNKGKGNVHHVGLYIGNDQYIHAPQTGDVVKISSLSGRQKKKHDFARARRFF
>NC_009089.1|WP_009901352.1|1132226_1132487_+|DUF2577-domain-containing-protein
MSQELLQIIKKAAMDAVETSNPMQIAFGTIESVNPLIVKIEQKASFEEFFLIQTETFKRYTDKKIGDKLVLIRMQGGQQYLILDRM
>NC_009089.1|WP_011861039.1|1132491_1132911_+|DUF2634-domain-containing-protein
MLPSDNLDYDIEDVSIINFDVRQEPSKTFKLNIEKSKIDGICDDVEALKQTIFLILNTERYEHLIYSWNYGVELNDLIGEPISFVIPELERRIKEALIQDDRVENVDNFEFQNVKGKVHCKFTVHSKYGNIKAEKVVSV
>NC_009089.1|WP_011861040.1|1132911_1133961_+|baseplate-J/gp47-family-protein
MFELMTFENIIKRMLDSVPDTFDKREGSIIYNALAPVAIELTETYIAMDELLDQTFVDTASYYYLEKRCKERGITPLSATNTIAKGVFNIDIPLDSRFNLGEYNYIAIERISEKTYKMKCETAGPIFELGKLIPIEYIDGLETAELTEILINGEDEESEDSLRQRYYDSLNSQSFGGNMQNYKDEVNKIQDVGGVKVYPVWDGGGTVKLVIINSNFKVPSEDLVNLVQEEIDPIGHQGQGLGLAPIGHKVTVTGVVSTTINISAEITYKNGYTWENIKSIAEEAIDDYLNELNMSWEDEENLIVRISQIETRLLSIDGVLDITNTMINDVKSNLTIDSNSIVVRGEVVG
>NC_009089.1|WP_011861041.1|1133953_1134571_+|YmfQ-family-protein
MDKEINLINYLPQILQDKEEYIKVFNVENKEIKTLHEKLNDLSSDQFLEDLTPSGIKRWEKIMSITPKSNESLEDRRFRIFSKYISKLPYSERFLRNWLDSIVGEGNYELTINNATYNIHLESDARNQDWFEEVHSFVSNIKPCNMTLDYTRVLISKDNYMNFGITTLMGQEITIYPWSPPDIETYGEIDVLTGNGVGYQEITIF
>NC_009089.1|WP_011861042.1|1134582_1135386_+|phage-tail-protein
MAIDKSYYTIITDVGKAKIANASVTGNKVGFVKIQLGDGGGSEYTPTESQTALKNVVWEGNIGNTTTDETAPNCIILESLIPSSVGGFMIREIGYLDDENNLIAISKYKECYKPSIEQGAVVDMKVKTVLIVSNVNNIELKIDPTIIFATLKDIQELETKIGTINTKIDTTKTELTSNIETAKTELSNKIGDTTQLNTTDKTNIVSALNEVKTSVDSIETTAEKTSYNNATSKLTATTVQGAIDEVVAKIENFNEVNISIQNDMLPI

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Crispr_ID: NC_009089_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_3

1125024-1125450

Orphan

I-A

Consensus_repeat	Method
GTTTTAGATTAACTATATGGAATGTAAAT	PILER-CR
GTTTTAGATTAACTATATGGAATGTAAAT	CRISPRCasFinder
GTTTTAGATTAACTATATGGAATGTAAAT	CRT

6 spacers

The CRISPR arrays of NC_009089_3

>merge|NC_009089|3|1125024-1125450|PILER-CR,CRISPRCasFinder,CRT
GTTTTAGATTAACTATATGGAATGTAAATGTAGAGTCTTTATATGGTAGAGGTGGAATATATAAGTGTTTTAGATTAACTATATGGAATGTAAATAACTCTTCAATATCTCCTAATCGTTCAATATAATTCTCGTTTTAGATTAACTATATGGAATGTAAATACTGTATGCCATCTAAATGCATCATACAAACTTATTTGTTTTAGATTAACTATATGGAATGTAAATTATACTTCCTAATGCAATCAAATAAGTACCTAAAATCGTTTTAGATTAACTATATGGAATGTAAATTTCGCAACTTATGATGGTGAAATGATTACATTAACAGGTTTTATATTAACTATGTGGTATGTAAATAATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGGGTTTTAGATTAACTATGTGGTATGTAAATG

>NC_009089|3|1|1125024-1125317|PILER-CR
GTTTTAGATTAACTATATGGAATGTAAAT	GTAGAGTCTTTATATGGTAGAGGTGGAATATATAAGT
GTTTTAGATTAACTATATGGAATGTAAAT	AACTCTTCAATATCTCCTAATCGTTCAATATAATTCTC
GTTTTAGATTAACTATATGGAATGTAAAT	ACTGTATGCCATCTAAATGCATCATACAAACTTATTT
GTTTTAGATTAACTATATGGAATGTAAAT	TATACTTCCTAATGCAATCAAATAAGTACCTAAAATC
GTTTTAGATTAACTATATGGAATGTAAAT

>NC_009089|3|3|1125024-1125450|CRISPRCasFinder
GTTTTAGATTAACTATATGGAATGTAAAT	GTAGAGTCTTTATATGGTAGAGGTGGAATATATAAGT
GTTTTAGATTAACTATATGGAATGTAAAT	AACTCTTCAATATCTCCTAATCGTTCAATATAATTCTC
GTTTTAGATTAACTATATGGAATGTAAAT	ACTGTATGCCATCTAAATGCATCATACAAACTTATTT
GTTTTAGATTAACTATATGGAATGTAAAT	TATACTTCCTAATGCAATCAAATAAGTACCTAAAATC
GTTTTAGATTAACTATATGGAATGTAAAT	TTCGCAACTTATGATGGTGAAATGATTACATTAACAG
GTTTTATATTAACTATGTGGTATGTAAAT	AATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG
GTTTTAGATTAACTATGTGGTATGTAAATG

>NC_009089|3|1|1125024-1125449|CRT
GTTTTAGATTAACTATATGGAATGTAAAT	GTAGAGTCTTTATATGGTAGAGGTGGAATATATAAGT
GTTTTAGATTAACTATATGGAATGTAAAT	AACTCTTCAATATCTCCTAATCGTTCAATATAATTCTC
GTTTTAGATTAACTATATGGAATGTAAAT	ACTGTATGCCATCTAAATGCATCATACAAACTTATTT
GTTTTAGATTAACTATATGGAATGTAAAT	TATACTTCCTAATGCAATCAAATAAGTACCTAAAATC
GTTTTAGATTAACTATATGGAATGTAAAT	TTCGCAACTTATGATGGTGAAATGATTACATTAACAG
GTTTTATATTAACTATGTGGTATGTAAAT	AATATAACAAAGTGGATGTTCTCTAAAAATAAAGAGG
GTTTTAGATTAACTATGTGGTATGTAAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861030.1\|1120448_1120874_+\|HK97-gp10-family-phage-protein	unknown	unknown	gnl\|CDD\|377415
NC_009089.1\|WP_011861039.1\|1132491_1132911_+\|DUF2634-domain-containing-protein	unknown	unknown	gnl\|CDD\|378510
NC_009089.1\|WP_003429853.1\|1123343_1123784_+\|phage-portal-protein	unknown	unknown	gnl\|CDD\|378084
NC_009089.1\|WP_003429844.1\|1120101_1120449_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861042.1\|1134582_1135386_+\|phage-tail-protein	unknown	unknown	gnl\|CDD\|372197
NC_009089.1\|WP_003429855.1\|1124124_1124286_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009888836.1\|1119706_1120108_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861037.1\|1129560_1130250_+\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|236880
NC_009089.1\|WP_009901352.1\|1132226_1132487_+\|DUF2577-domain-containing-protein	unknown	unknown	gnl\|CDD\|378501
NC_009089.1\|WP_011861031.1\|1121296_1121473_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861034.1\|1125949_1126510_+\|lipoprotein	unknown	unknown	unknown
NC_009089.1\|WP_011861038.1\|1130242_1132213_+\|cell-wall-hydrolase	unknown	unknown	gnl\|CDD\|366353
NC_009089.1\|WP_009901504.1\|1120866_1121304_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861032.1\|1121474_1122785_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377435
NC_009089.1\|WP_011861040.1\|1132911_1133961_+\|baseplate-J/gp47-family-protein	unknown	unknown	gnl\|CDD\|377414
NC_009089.1\|WP_011861035.1\|1126553_1127123_+\|zinc-ribbon-domain-containing-protein	unknown	unknown	gnl\|CDD\|236014
NC_009089.1\|WP_011861041.1\|1133953_1134571_+\|YmfQ-family-protein	unknown	unknown	gnl\|CDD\|378379
NC_009089.1\|WP_003429851.1\|1122801_1123272_+\|phage-tail-tube-protein	unknown	unknown	gnl\|CDD\|378178
NC_009089.1\|WP_009896624.1\|1119463_1119697_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274765
NC_009089.1\|WP_011861036.1\|1127193_1129545_+\|tape-measure-protein	unknown	unknown	gnl\|CDD\|131723

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861030.1\|1120448_1120874_+\|HK97-gp10-family-phage-protein	gnl\|CDD\|377415	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component. This family of proteins is found in the caudovirales. It may be a tail component.	2.86254e-17
NC_009089.1\|WP_011861039.1\|1132491_1132911_+\|DUF2634-domain-containing-protein	gnl\|CDD\|378510	pfam10934, DUF2634, Protein of unknown function (DUF2634). Some members in this family of proteins are annotated as phage related, xkdS however currently there is no known function.	1.81684e-36
NC_009089.1\|WP_003429853.1\|1123343_1123784_+\|phage-portal-protein	gnl\|CDD\|378084	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC. This is a family of phage tail assembly chaperone proteins, TACs, from Gram-positive bacteriophages, in particular PBSX from Firmicutes.	8.20802e-57
NC_009089.1\|WP_009901352.1\|1132226_1132487_+\|DUF2577-domain-containing-protein	gnl\|CDD\|378501	pfam10844, DUF2577, Protein of unknown function (DUF2577). This family of proteins has no known function.	1.7145e-19
NC_009089.1\|WP_011861036.1\|1127193_1129545_+\|tape-measure-protein	gnl\|CDD\|131723	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain. Proteins containing this domain are strictly bacterial, including bacteriophage and prophage regions of bacterial genomes. Most members are 800 to 1800 amino acids long, making them among the longest predicted proteins of their respective phage genomes, where they are encoded in tail protein regions. This roughly 80-residue domain described here usually begins between residue 100 and 250. Many members are known or predicted to act as phage tail tape measure proteins, a minor tail component that regulates tail length.	1.61877e-16
NC_009089.1\|WP_011861042.1\|1134582_1135386_+\|phage-tail-protein	gnl\|CDD\|372197	pfam12571, DUF3751, Phage tail-collar fibre protein. This domain family is found in bacteria and viruses, and is approximately 160 amino acids in length. There are two completely conserved residues (K and W) that may be functionally important. The members are annotated as being putative phage tail or tail-collar proteins.	1.66977e-58
NC_009089.1\|WP_011861038.1\|1130242_1132213_+\|cell-wall-hydrolase	gnl\|CDD\|366353	pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.	3.23294e-31
NC_009089.1\|WP_011861032.1\|1121474_1122785_+\|hypothetical-protein	gnl\|CDD\|377435	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain. This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	3.90974e-37
NC_009089.1\|WP_011861040.1\|1132911_1133961_+\|baseplate-J/gp47-family-protein	gnl\|CDD\|377414	pfam04865, Baseplate_J, Baseplate J-like protein. The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologs, which are thought to have been horizontally transferred.	6.54674e-50
NC_009089.1\|WP_003429851.1\|1122801_1123272_+\|phage-tail-tube-protein	gnl\|CDD\|378178	pfam09393, DUF2001, Phage tail tube protein. This is a family of phage tail tube proteins including protein XkdM from phage-like element PBSX protein whose structure adopts a beta barrel flanked with alpha helical regions.	2.40208e-57
NC_009089.1\|WP_011861041.1\|1133953_1134571_+\|YmfQ-family-protein	gnl\|CDD\|378379	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313). Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins.	7.80829e-43
NC_009089.1\|WP_011861035.1\|1126553_1127123_+\|zinc-ribbon-domain-containing-protein	gnl\|CDD\|236014	PRK07418, PRK07418, acetolactate synthase large subunit.	0.000331623
NC_009089.1\|WP_009896624.1\|1119463_1119697_+\|hypothetical-protein	gnl\|CDD\|274765	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition. [Mobile and extrachromosomal element functions, Plasmid functions].	0.000139844
NC_009089.1\|WP_011861037.1\|1129560_1130250_+\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|236880	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional.	3.86484e-11

>NC_009089.1|WP_003429855.1|1124124_1124286_+|hypothetical-protein
MNNFLLNVIAGVIASLIFCLICKVFLKVKSHSTRGKSKSGWEFDFKIKFHKFK
>NC_009089.1|WP_003429853.1|1123343_1123784_+|phage-portal-protein
MSNLSAFLSQNAIKVDNVKYVASNRFLDKEGKPVEWELKVLSSEEDEALRRKCTKRVKVIGNNGKHTGQYTSEIDYNSYVAELCVASTVFPDLKDAELQNSYGVMGEAQLLKTMLTAGEYVNYTVKVNEVNGFDTSFEDKVEEAKN
>NC_009089.1|WP_003429851.1|1122801_1123272_+|phage-tail-tube-protein
MAQTINAKDTVSAKKAECFITIEGKRYNFMQAIDLEAKMEKNKSEVPILGRTTKGNKTTGSTNTGSATFHYNTSIFRELLYRYKETGEDIYFDIQVTNEDPTSAVGRQTVVLKDCNMDSGIITKFDADGEYLDEDMDFTFEDWELVEKFNLLAGME
>NC_009089.1|WP_011861032.1|1121474_1122785_+|hypothetical-protein
MALGGGTFVTQNKILPGSYINFISAKRATSSLSDRGIVAIPLELDWGIDEDVFQVTSDDFEKYSVKYFGYDYTHEKLKGLRDLFKNIRLGYFYKLNKGVKASCTIATAKYSGIRGNDLKVTVTTNIDDNAKFDVVTLLDNKKVDTQIAKVITDLQDNDYITWKKDATLEASAGLVFTGGTNGEAVTGAEYQAFLDKIESYSFNALGCLATTTEIKSLFVEFTKRMRDKVGAKFQTVLYKKSDADYEGVVSVENKIKEIGLVESSLIYWAAGAIAGCDINKSNTNKKYDGEFDVDVNYTQIQLEEALKTGKFIFHKVGDEVHVLEDINTFVSFTDDKNDDFSSNQSVRVLDQIANDIATLFNEKYLGKVPNDKAGRISFWNDVVKHHKELENIRAIEDFKTDDVSVELGNDKKTVIVSDAVKVINAMSKLYMTVSVN
>NC_009089.1|WP_011861031.1|1121296_1121473_+|hypothetical-protein
MNKTLSKEDNYKFTKEQIVNSKKYVNRKDLLNAILKENDLYSFSEVEEIINSFMKGVS
>NC_009089.1|WP_009901504.1|1120866_1121304_+|hypothetical-protein
MLNNIIDGISVKLDKSFGEKYTIYSEDVEQGINEPCFFIVPLNPSKTPYPSGRELKKNSFDVHYFPHSEDKNFEINEIAEMLLEELEYIEIDGDLVRGTNMNFEIIDNVLHFFVDYNYFTIKSNDTDKMDTVELFGGLKRGDNFE
>NC_009089.1|WP_011861030.1|1120448_1120874_+|HK97-gp10-family-phage-protein
MARWGSVDFREFKRVCKKMEELTKIDLDKFCKDAARELAARLLGKVIRRTPVDTGFLRQGWNGVAYARSLPVYKQGNNYIIEVVNPTEYASYVEYGHRTKGGKGWVKGQHFLTISEMELQGQVDKIIEKKLLILLKGVFDA
>NC_009089.1|WP_003429844.1|1120101_1120449_+|hypothetical-protein
MVSKTRKAIEMLYRDKCTIVEYQPIKDPVTKRTNNKEVIVLENQPCKLSYKNIVSATEGKVAKLEQTIKLFISPDIEIKAGSKLIINDKEYVRSGESAIYPNHQEIILELFKDKA
>NC_009089.1|WP_009888836.1|1119706_1120108_+|hypothetical-protein
MENNIIDEIEKRLESFGYILKDGDKWLIGFVREKIENIIKLDCNIKTMPIELKEIEVDMIVGEFLFTKKNMGQLDIESINFEAVEKSISEGDTKVDFAIGSGSQTPEQRFDSLIAYLTTYGKNKILTFRCLRW
>NC_009089.1|WP_009896624.1|1119463_1119697_+|hypothetical-protein
MAQVRKLNRILTIEECKIDDFLEMGYDLIDETGKAVKYGKSLNVKDLIAENNILRSKVESLEEENKQLKEKNKLTKK
>NC_009089.1|WP_011861034.1|1125949_1126510_+|lipoprotein
MKKKVCFLFSILIVICLAIVGCSNSESPEESSKNNEPKKEEKKDKEVVIGEKIISDKMEITINNIEFSYDVLPKVKESLYTHYPAESGKVYIDIAADIKNTQKQELNCSDLLTIEANYNDGYKYSSQTIVEDETTGFTYDNISSIDPLETKGVRFIIDCPDEVKTSDKPVILSFTFDGNKYVYKMK
>NC_009089.1|WP_011861035.1|1126553_1127123_+|zinc-ribbon-domain-containing-protein
MDDIVEYIFCSECGAKCLKGSKFCSECGTEIADIKMLNESIIKEKEYDLKGIDLQHVMQETSFIKASSVRRLKELTGIELDDCRKILEEPYQKYYNENADMLEEKRKKEDDISKIRKAKEEKKEKEKIACCPACGSTSLTTHKKGFGIGKAITGATIAGGIGLVAGNIGAKKVRVTCLNCGKQFWAGKK
>NC_009089.1|WP_011861036.1|1127193_1129545_+|tape-measure-protein
MATIQTSIRIFDGMTPAFRNMTTSINTTINSLERLQGRLNNPLNTGGIQTSQQSLNNIESILTRIEQSIGKADEQQRKFNDDINKGASNTDRLLGSVKKVVGTYMGLKTIGGLANLSDQMTSTNARLNMINDGQLSDGGLNKMIFQSAERSRASYLDTAQIVSRIGMNAGSAFSSTREIVSFAEQLNKKFVIAGASTEEMNSALLQLTQGLGSGVLRGEELNAVFESAPNIIKSIADYLDVDIGKIRGMASEGMLTADIVKNSLLAASAETNAQFEKMPLTIGQIFTSIKNNAVMIFGAIQKKIEDTVSSGGFRTFIVNVTDSLYVLGAVGYSVFNGFIDLLSSPTFQGFANMMIVGISLITQGFGWLLTVLGSVINFISQGWSIIQPILITSIVLWGLYKTAVIAGALVTAIQVVWIALQTFWTNLLNGSLLTNIMMNIAAKISTDALSGSMLLLITTIVMVVAAVALVIAAIFVAVAIFNHFAGTSISATGVVVGAFYFLGTCIYDVFAGAWNIVMAFAEFFVNSFNIVIYNVQLLFYKFQNFVINAMGDVGGSFDNCATALANAFVSAANIAIKGINGVIKTLNLIPGVNIKTFGSLDKIDSFVKQYKDYQKTLKEPVKPAEWKAPTMKLKNPVDSFKKGYEVGQNLENKIKDAFDISKIAEKAKKDLGLDDLWDDKYGLGDRFGSAGLNSPLNNAAKGAKDTAGNTAKMAKTMDKSQEDLKYLRDIAEQETINRFTGVNIKIDMNNTNNISKDTDVDGIVNVLTEKLNDAMVVSAEGIV
>NC_009089.1|WP_011861037.1|1129560_1130250_+|LysM-peptidoglycan-binding-domain-containing-protein
MAYDFYLDGVQLPIPPPKLEIKVTNKNKTVDLINTGEVNILKKEGLSEISFEAEFTHNKLPFYRGAFRDVQFFLSKLELLKTDCKPFQFIVSREMGGKVLFNTNIKVSLEEYAISEDADNGSDTKVAIKLKQYRDYSTKKLVLAPPKNETGRPNVKIEPKRVDSVNATNTKTYTVKAGDSLWSICQKQLGNGSLYKKVYELNKSMMDKANKGKNLSKYTIYKGQVLKLG
>NC_009089.1|WP_011861038.1|1130242_1132213_+|cell-wall-hydrolase
MVDELVLANDRDVRLVIAHWEDFYEPAVIDGITWEIERRGTPSKLEFTIVMDDILEFCEGNSVRLYYKGIGIFYGYIFQKKRDKENHIKIVAYDQLRYFKNKDTYVYSNKTASELVKMLAKDFNLKYNVIEDTKYKISRVEENKTLFDMILTALDDTLREKKEMYVLYDDFGRITLKNVASMKLDTVMNNDVIEDFDYNSSIDSDTYTKIKLVRDNEESGKRDVYIAQDSAHMRSWGILQMFDTVDKNMSEAEIKQKCDILLKLYNKKTKSLSLKNALGDIRVRAGCLVPVFLDLGDIDLQNYMLVEKVKHTFENNSHFMDLTLVDGDEFASYSSSSYSSGNSNNKDEKKNGPAQSTTSKEDNDMINKLNKVFKNKLSNTGNIFVKYSNAYKVNAALMAAISIHETGNGSSSLCKNKNNFFGMKGMSFGSVDEGIKRGISNLSRNYIHTGRKTLESIRDKYAPLYDSPLNKDWVPGVGKFYKQITGNAYSSNSAGTGVGSNEEAEKNLKDTTYQVQNNNSNTLTNNNSKVSKVIQEAKNQLGKPYAWGGNGPKSFDCSGLMVWAFKRGAGINLKRVSADQSKDSRGKLLCNINDVKAGDLVFFAYNKGKGNVHHVGLYIGNDQYIHAPQTGDVVKISSLSGRQKKKHDFARARRFF
>NC_009089.1|WP_009901352.1|1132226_1132487_+|DUF2577-domain-containing-protein
MSQELLQIIKKAAMDAVETSNPMQIAFGTIESVNPLIVKIEQKASFEEFFLIQTETFKRYTDKKIGDKLVLIRMQGGQQYLILDRM
>NC_009089.1|WP_011861039.1|1132491_1132911_+|DUF2634-domain-containing-protein
MLPSDNLDYDIEDVSIINFDVRQEPSKTFKLNIEKSKIDGICDDVEALKQTIFLILNTERYEHLIYSWNYGVELNDLIGEPISFVIPELERRIKEALIQDDRVENVDNFEFQNVKGKVHCKFTVHSKYGNIKAEKVVSV
>NC_009089.1|WP_011861040.1|1132911_1133961_+|baseplate-J/gp47-family-protein
MFELMTFENIIKRMLDSVPDTFDKREGSIIYNALAPVAIELTETYIAMDELLDQTFVDTASYYYLEKRCKERGITPLSATNTIAKGVFNIDIPLDSRFNLGEYNYIAIERISEKTYKMKCETAGPIFELGKLIPIEYIDGLETAELTEILINGEDEESEDSLRQRYYDSLNSQSFGGNMQNYKDEVNKIQDVGGVKVYPVWDGGGTVKLVIINSNFKVPSEDLVNLVQEEIDPIGHQGQGLGLAPIGHKVTVTGVVSTTINISAEITYKNGYTWENIKSIAEEAIDDYLNELNMSWEDEENLIVRISQIETRLLSIDGVLDITNTMINDVKSNLTIDSNSIVVRGEVVG
>NC_009089.1|WP_011861041.1|1133953_1134571_+|YmfQ-family-protein
MDKEINLINYLPQILQDKEEYIKVFNVENKEIKTLHEKLNDLSSDQFLEDLTPSGIKRWEKIMSITPKSNESLEDRRFRIFSKYISKLPYSERFLRNWLDSIVGEGNYELTINNATYNIHLESDARNQDWFEEVHSFVSNIKPCNMTLDYTRVLISKDNYMNFGITTLMGQEITIYPWSPPDIETYGEIDVLTGNGVGYQEITIF
>NC_009089.1|WP_011861042.1|1134582_1135386_+|phage-tail-protein
MAIDKSYYTIITDVGKAKIANASVTGNKVGFVKIQLGDGGGSEYTPTESQTALKNVVWEGNIGNTTTDETAPNCIILESLIPSSVGGFMIREIGYLDDENNLIAISKYKECYKPSIEQGAVVDMKVKTVLIVSNVNNIELKIDPTIIFATLKDIQELETKIGTINTKIDTTKTELTSNIETAKTELSNKIGDTTQLNTTDKTNIVSALNEVKTSVDSIETTAEKTSYNNATSKLTATTVQGAIDEVVAKIENFNEVNISIQNDMLPI

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Crispr_ID: NC_009089_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_5

1210874-1210962

Orphan

Consensus_repeat	Method
GTGCGTTAGCACTTTAAGTAACGGAAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009089_5

>merge|NC_009089|5|1210874-1210962|CRISPRCasFinder
GTGCGTTAGCACTTTAAGTAACGGAATAATCTGAGTGAATACGAAGGTTGTTCGTTGACGTGGTGCGTTAGCACTTTAAGCAACGGAAT

>NC_009089|5|5|1210874-1210962|CRISPRCasFinder
GTGCGTTAGCACTTTAAGTAACGGAAT	AATCTGAGTGAATACGAAGGTTGTTCGTTGACGTG
GTGCGTTAGCACTTTAAGCAACGGAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_021360388.1\|1205669_1206743_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|381626
NC_009089.1\|WP_003432157.1\|1196812_1197649_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224097
NC_009089.1\|WP_011861080.1\|1232936_1236464_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|129705
NC_009089.1\|WP_003437948.1\|1231738_1232950_+\|exonuclease-SbcCD-subunit-D	unknown	unknown	gnl\|CDD\|273178
NC_009089.1\|WP_011861073.1\|1200547_1202212_+\|DUF2334-domain-containing-protein	unknown	unknown	gnl\|CDD\|200549
NC_009089.1\|WP_032506555.1\|1197642_1198428_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224098
NC_009089.1\|WP_009888861.1\|1236594_1237848_+\|HlyC/CorC-family-transporter	unknown	unknown	gnl\|CDD\|224173
NC_009089.1\|WP_003437942.1\|1221250_1223470_+\|ATP-dependent-helicase	unknown	unknown	gnl\|CDD\|223288
NC_009089.1\|WP_003437003.1\|1206796_1207921_+\|UDP-N-acetylglucosamine-2-epimerase-(non-hydrolyzing)	unknown	unknown	gnl\|CDD\|223458
NC_009089.1\|WP_003428590.1\|1223578_1224409_+\|PD-(D/E)XK-nuclease-family-protein	unknown	unknown	gnl\|CDD\|378929
NC_009089.1\|WP_011861075.1\|1214567_1216586_+\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|119407
NC_009089.1\|WP_009895984.1\|1198427_1199480_+\|spermidine/putrescine-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|270308
NC_009089.1\|WP_003437008.1\|1202260_1203517_+\|glycosyltransferase-family-2-protein	unknown	unknown	gnl\|CDD\|133045
NC_009089.1\|WP_011861074.1\|1207998_1208973_+\|mannosyl-glycoprotein-endo-beta-N-acetylglucosamidase	unknown	unknown	gnl\|CDD\|224619
NC_009089.1\|WP_011861077.1\|1219344_1221258_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861079.1\|1227865_1231693_+\|helicase-exonuclease-AddAB-subunit-AddA	unknown	unknown	gnl\|CDD\|274299
NC_009089.1\|WP_009895990.1\|1203539_1205621_+\|cell-wall-anchor	unknown	unknown	gnl\|CDD\|377001
NC_009089.1\|WP_003437011.1\|1199709_1200558_+\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|225109
NC_009089.1\|WP_011861078.1\|1224398_1227866_+\|helicase-exonuclease-AddAB-subunit-AddB	unknown	unknown	gnl\|CDD\|213736
NC_009089.1\|WP_011861076.1\|1217090_1219103_+\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|376559

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_021360388.1\|1205669_1206743_+\|hypothetical-protein	gnl\|CDD\|381626	cd19608, GH113_mannanase-like, Glycoside hydrolase family 113 beta-1,4-mannanase and similar proteins. Mannan endo-1,4-beta mannosidase (E.C 3.2.1.78) randomly cleaves (1->4)-beta-D-mannosidic linkages in mannans, galactomannans and glucomannans and is also called beta-1,4-mannanase, endo-1,4-beta-mannanase, endo-beta-1,4-mannase, beta-mannanase B, beta-1, 4-mannan 4-mannanohydrolase, endo-beta-mannanase, beta-D-mannanase, 1,4-beta-D-mannan mannanohydrolase, and 4-beta-D-mannan mannanohydrolase. (1->4)-beta-linked mannans are polysaccharides with a linear polymer backbone of (1->4)-beta-linked mannose units (in plants and fungi) or alternating mannose and glucose/galactose units (glucomannan in plants and fungi, and galactomannan and galactoglucomannan in plants), such as in the hemicellulose fraction of hard- and softwoods. Complete degradation of mannan requires a series of enzymes, including beta-1,4-mannanase. According to the CAZy database beta-1,4-mannanases are grouped into various glycoside hydrolase (GH) families; GH family 113 beta-1,4-mannanases include mostly bacterial and archaeal sequences.	8.98892e-55
NC_009089.1\|WP_003432157.1\|1196812_1197649_+\|ABC-transporter-permease	gnl\|CDD\|224097	COG1176, PotB, ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism].	5.93557e-87
NC_009089.1\|WP_003437948.1\|1231738_1232950_+\|exonuclease-SbcCD-subunit-D	gnl\|CDD\|273178	TIGR00619, Nuclease_SbcCD_subunit_D, exonuclease SbcD. All proteins in this family for which functions are known are double-stranded DNA exonuclease (as part of a complex with SbcC homologs). This complex functions in the initiation of recombination and recombinational repair and is particularly important in regulating the stability of DNA sections that can form secondary structures. This family is likely homologous to the MRE11 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair].	1.1197e-62
NC_009089.1\|WP_011861073.1\|1200547_1202212_+\|DUF2334-domain-containing-protein	gnl\|CDD\|200549	cd10923, CE4_COG5298, Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria. This family corresponds to a group of uncharacterized bacterial proteins with high sequence similarity to the catalytic domain of the six-stranded barrel rhizobial NodB-like proteins, which remove N-linked or O-linked acetyl groups from cell wall polysaccharides and belong to the larger carbohydrate esterase 4 (CE4) superfamily. Some family members contain an additional copper amine oxidase N-terminal domain.	2.10765e-104
NC_009089.1\|WP_032506555.1\|1197642_1198428_+\|ABC-transporter-permease	gnl\|CDD\|224098	COG1177, PotC, ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism].	7.90599e-86
NC_009089.1\|WP_009888861.1\|1236594_1237848_+\|HlyC/CorC-family-transporter	gnl\|CDD\|224173	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only].	4.11548e-126
NC_009089.1\|WP_003437942.1\|1221250_1223470_+\|ATP-dependent-helicase	gnl\|CDD\|223288	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair].	1.34108e-56
NC_009089.1\|WP_003437003.1\|1206796_1207921_+\|UDP-N-acetylglucosamine-2-epimerase-(non-hydrolyzing)	gnl\|CDD\|223458	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane].	2.56339e-170
NC_009089.1\|WP_003428590.1\|1223578_1224409_+\|PD-(D/E)XK-nuclease-family-protein	gnl\|CDD\|378929	pfam12705, PDDEXK_1, PD-(D/E)XK nuclease superfamily. Members of this family belong to the PD-(D/E)XK nuclease superfamily.	1.13445e-13
NC_009089.1\|WP_011861075.1\|1214567_1216586_+\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|119407	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs are members of the bacterial autolytic system and carry a signal peptide in their N-termini that allows their transport across the cytoplasmic membrane. However, the bacteriophage MurNAc-LAAs are endolysins since these phage-encoded enzymes break down bacterial peptidoglycan at the terminal stage of the phage reproduction cycle. As opposed to autolysins, almost all endolysins have no signal peptides and their translocation through the cytoplasmic membrane is thought to proceed with the help of phage-encoded holin proteins. The amidase catalytic module is fused to another functional module (cell wall binding module or CWBM) either at the N- or C-terminus, which is responsible for high affinity binding of the protein to the cell wall.	1.12804e-59
NC_009089.1\|WP_009895984.1\|1198427_1199480_+\|spermidine/putrescine-ABC-transporter-substrate-binding-protein	gnl\|CDD\|270308	cd13590, PBP2_PotD_PotF_like, The periplasmic-binding component of ABC transporters involved in uptake of polyamines; possess the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain that functions as the primary high-affinity receptors of ABC-type polyamine transport systems. Polyamine transport plays an essential role in the regulation of intracellular polyamine levels which are known to be elevated in rapidly proliferating cells and tumors. Natural polyamines are putrescine, spermindine, and spermine. They are polycations that play multiple roles in cell growth, survival and proliferation, and plant stress and disease resistance. They can interact with negatively charged molecules, such as nucleic acids, to modulate their functions. Members of this family belong to the type 2 periplasmic-binding fold superfamily. PBP2 is comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.	9.11404e-143
NC_009089.1\|WP_003437008.1\|1202260_1203517_+\|glycosyltransferase-family-2-protein	gnl\|CDD\|133045	cd06423, CESA_like, CESA_like is the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, glucan biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis protein catalyzes the elongation of beta-1,2 polyglucose chains of Glucan.	1.58452e-61
NC_009089.1\|WP_011861074.1\|1207998_1208973_+\|mannosyl-glycoprotein-endo-beta-N-acetylglucosamidase	gnl\|CDD\|224619	COG1705, FlgJ, Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion].	1.64991e-46
NC_009089.1\|WP_011861080.1\|1232936_1236464_+\|AAA-family-ATPase	gnl\|CDD\|129705	TIGR00618, Nuclease_SbcCD_subunit_C, exonuclease SbcC. All proteins in this family for which functions are known are part of an exonuclease complex with sbcD homologs. This complex is involved in the initiation of recombination to regulate the levels of palindromic sequences in DNA. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair].	6.85767e-40
NC_009089.1\|WP_011861079.1\|1227865_1231693_+\|helicase-exonuclease-AddAB-subunit-AddA	gnl\|CDD\|274299	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_009089.1\|WP_009895990.1\|1203539_1205621_+\|cell-wall-anchor	gnl\|CDD\|377001	pfam03170, BcsB, Bacterial cellulose synthase subunit. This family includes bacterial proteins involved in cellulose synthesis. Cellulose synthesis has been identified in several bacteria. In Agrobacterium tumefaciens, for instance, cellulose has a pathogenic role: it allows the bacteria to bind tightly to their host plant cells. While several enzymatic steps are involved in cellulose synthesis, potentially the only step unique to this pathway is that catalyzed by cellulose synthase. This enzyme is a multi subunit complex. This family encodes a subunit that is thought to bind the positive effector cyclic di-GMP. This subunit is found in several different bacterial cellulose synthase enzymes. The first recognized sequence for this subunit is BcsB. In the AcsII cellulose synthase, this subunit and the subunit corresponding to BcsA are found in the same protein. Indeed, this alignment only includes the C-terminal half of the AcsAII synthase, which corresponds to BcsB.	2.13232e-57
NC_009089.1\|WP_003437011.1\|1199709_1200558_+\|GGDEF-domain-containing-protein	gnl\|CDD\|225109	COG2199, COG2199, c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms].	5.35599e-13
NC_009089.1\|WP_011861078.1\|1224398_1227866_+\|helicase-exonuclease-AddAB-subunit-AddB	gnl\|CDD\|213736	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_009089.1\|WP_011861076.1\|1217090_1219103_+\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|376559	pfam01520, Amidase_3, N-acetylmuramoyl-L-alanine amidase. This enzyme domain cleaves the amide bond between N-acetylmuramoyl and L-amino acids in bacterial cell walls.	3.88969e-60

>NC_009089.1|WP_011861074.1|1207998_1208973_+|mannosyl-glycoprotein-endo-beta-N-acetylglucosamidase
MARKLIKNLGKSKSVKRVKLLFKKIFITVFIVASIVAIFNITKYFEELYKVRDLKSTKIEYYMDVADEAGDGKVQLSWKALLAIDMVIHDEDLSNIKKKDTLDIGEKFIVEDKNDKGEKVYKVKKFNKVLSELKFDSSQKSRARKYMKDLEYTYLGNKQLDSSDEKIKFIKKLEDSAIREYIDYGILPSITIGQAILESGWGNSKLTKQSNNLFGIKADKAWKGKSVEISTSEHYNEKIVASFRSYNSLQDSVKDHSLFLINNKRYRKHGLFEAKDYISQAQALENAGYSTAEDKKGNRIYAELLIDVIRSYNLQLIDNKVETK
>NC_009089.1|WP_003437003.1|1206796_1207921_+|UDP-N-acetylglucosamine-2-epimerase-(non-hydrolyzing)
MNDIKVMTVFGTRPEAIKVAPLIKELEKRENIKSIVCVTAQHREMLDQVIETFNINVDYDLDIMEKGQSLNDITCKILNKLPLILNKENPNIILVHGDTTTTLATSLTAFYNKTLVGHIEAGLRTYDKYSPFPEELNRQLTGIIADMHFAPTNLARKNLISEGKPNNNIFVTGNTAIDALKMTIKENYNHPIIDEIGNDRMILLTSHRRENLGKPMKNIFRAIKRIVDDFEDVQIVYPIHLNPKIRTIADEIFGKFPEKIHIIEPLDVADFHNFLNKSYMIMTDSGGIQEEAPSLGKPVLVLRDKTERTEGIEAKTLKLVGTNEDRIYNSVSDLLINKDNYVQMSKASNPYGDGNASKYIVDIIIKKFNCKYLN
>NC_009089.1|WP_021360388.1|1205669_1206743_+|hypothetical-protein
MNKFKLKRSILISLIILIFIFIVYFVSIELKDRSLVNNQYKGKIKSANLSVDYEINQVMKDIDKLGLNTVNVPIIINVESINSDIMSIDNNSKEKAIKLIKKLNKKGISTILEAYPWIENGKLYETDWNPINKKRFFYTWQNAILNELIIDVANPLDVNVLNIGSNFVHLEEYQQNWGEIIDFVQSKFDGLVTYRTNWWYTKKDDLSSKLFYEQKLNNNFFDKLDFISIAAYFELSNKPVNTVDELISALHSSTVNNRGQNIKQEIYNLYKAHRKPIFFGELGFSNRESASSQPWNHTPSKAVNGEEQARCFEAYKKVFENEDWINGFSVFCVGKIDDEKNFYPSKESIKVIKSWYE
>NC_009089.1|WP_009895990.1|1203539_1205621_+|cell-wall-anchor
MKKFIISIISLVLFFSNISLIYKVNADETKVKNYKFERDITIDGVIGSNSTFFEVNKNWDIEEVLLHLNFSKSQILNGDVSSLTVLINNVPIKSIKLNAKTNYKNTLEVLVPKDYIIQGYNEIKIKTYKTISDKICQDDSNTGNWMVIHKESYISIRYKQKKVENSINEYPYPYAEIENNHKLDTTIVVPDNMTRGETTAVFNLASAFGKITKNDDLKLDVKLYSEMKNWSDDNIIYIGKPENTAEEILDILSIKEQTLLSSNCIIKQVDSPYNKNKKMMVVIGSNEDDLIKASNLLIENRLSNQVLSSSVLVNKETNIKINREQKLNLGHLTLKDLGYSDFLLEGAFNQQALFDVKIPTGKVLDDGSKIILNLRYSDNLDFEKSLVTVSINDVIVGSKKLDRSHSNNDKLELKIPKDIDNKNYYQVKLTFNLSIKNSNCVTRESNNPWAYVSNNSYLALSTKENETLSFENYPYPFVRDDEFNDLTVIMPDYSGSQAMTWMFRLGVTLGANINSHNGNINVIRGKEFSDKYKDTNIVVFGVPHNNSVIKMLNNNLNIKFDKNYSNFISNDKISFIDDYGKNISTIQLIKSPYNNQKNIMVISSMNEKNLYLGMDYLLNKSKVNDLKGDTLIIDEYGEVEDLAYNLKSKKEVKDSSWNMSINKTTKVFLMISFITIIVVMILSMLYIKKYKRR
>NC_009089.1|WP_003437008.1|1202260_1203517_+|glycosyltransferase-family-2-protein
MRDLNVSEYLFVFSLFSIWSLLLINIILAMGGYIFYFKNFDKEIKEIDEYPMISILVPAHNEAKVIGRTVESLLLLNYPKSKMELIVINDNSSDNSKEILENIKDRYNNYNFTIINTDSLTGGKGKSNALNIGYTISKGDFIAVYDADNTPDKNALRYLVQTIVMNDELGAVIGKFRTRNKNKNLLTKFINIETLSFQWMSQAGRWQLFNLCTIPGTNFILRRSIIEEIGGWDSKAIAEDTEISFRIYKLGYKIKLVPQSITWEQEPETVKVWIKQRTRWAKGNIYVLMKYIKNIFKQGRNKIVFDIAYFFSVYFLFLTSVIISDILFVLSISKLVEISIPINFFLIWILSYLLFIIEVSISLTIEKGEATIENIFIVAIMYFTYSQLWLFVAIKGMIEYLKDIIFKREVKWYKTERF
>NC_009089.1|WP_011861073.1|1200547_1202212_+|DUF2334-domain-containing-protein
MMFKIFNKSLLKLVVVLSIVLTISNFSLSSYASEITSSTDKVLIIYDSKKETAYNRDILNIMRTLLGRFSSDIELLKLSNYDGEINKNYYSHIFILGINENSYNNDKNTKNLISSLNSYKGTICWLGYGIENLLEHKKYNLDYVGKTNNIVSVNYRGKSYNLDEHYVFNIVESKDTSNKVIGSINDTLNKYPYIINDKNLFYVSKLDLDGVLFYIFCDSLNDIFNIKTFDKGRIFVRIEDVHAFREPKNLVEIADYLSSKNIPFTIALIPAYVNPKNHKVITLSESPEIVKAIKYMQDKGGTVILHGYTHQYKKEEVSGEGYEFWDGKKDEPLKENMKIFVKDRVLNGLRVCIENGIYPLAFEAPHYAMESEGYKELKKYFSTYMGQHQNNDKKFSTNTYPYIIRDTEEFNIFIPENLGYIDPEDKFTFQNIKENLDKLSIVRGFSGGFFFHSYLNIEYLKNTIEYLEKQNIEFMNLRDFNNWVKVDEIQIRNSGDEIIVNYDKDLDEITKSDTRFKSISNISKVLIFIVSISVLIFVIIFIYFKRIDKKKFLK
>NC_009089.1|WP_003437011.1|1199709_1200558_+|GGDEF-domain-containing-protein
MNRINKKIDLLILALLVFIFLIVGIVILSIRTENKLNVFIMLAIIFFIIMLTYLSNSVVGLITSSIIIFMYTSYILYNNITHNMDVEFISYMWIIATPVSSIIMGNLNKSINELQNTNKKLSEQYKELVTIDSETGLRNLKIFYNDVNMEISKSIRHNTDFSLMIVKLPYYGNLQTIFGENKTNKIVKYIGSNIIECTRNEDIIYSLQKDMIGILMPNTSLEGSKVVKDRIKKRIKELNLDLNNRGKYVNIDVKIAFLQYKSSFGDSINFKNIVEEELQYDV
>NC_009089.1|WP_009895984.1|1198427_1199480_+|spermidine/putrescine-ABC-transporter-substrate-binding-protein
MIKFKKAISLIAVGMMIVTLFTGCNKATDSTKVLNVYNVGDYIDESLIDKFEKETGIDVQYSTYDTNEMMYQKVKSGSTHYDLVFPSDYMVEKMKNEGLLEKLDFKNIPNMKYLDKSFLNPVYDKTNEYSVAYMWGTLGILYNKKEVKDPMDSWNILWNPKYKGNIMMFDSVRDTIGITLKKLGYSMNSVNPKEINEAKNLLMKQKDLVLAYVNDEGKDRLLGGEVAMGMLYSGDAVTLMEQNPDLDYAIPKEGTNKWVDAMCVPTTAQNKKEAELFINFLLDPENAKVNAEYIGYSTPNTGALKLLDPEITQNPVAYPSKEVLDKCETFEDIGENIKLYDKAWIELKSK
>NC_009089.1|WP_032506555.1|1197642_1198428_+|ABC-transporter-permease
MLKLKKITSNIYLALVFLFLYAPIFALVLFSFNDSKSMARWNGFTWKWYGQLLQNESIMSALYYTIVIAILASVISTIVGTISAIGIHKMRGKSKKLILNVNYLPILNTEIVTAVALMSLFVFVKMEFGFTTMLLAHIMFCLPYVILSVLPKMKQLPDNIEDAAMDLGATPIYALRKVILPQIKPGIVSGFLIAFTMSIDDFIISFFNAGNGVSNLSIEIYGMARRGIKPEINALSTIMFAVVLGLLLLANKKESIVRGIK
>NC_009089.1|WP_003432157.1|1196812_1197649_+|ABC-transporter-permease
MKRKSFLAYPYVVWSAIFVIIPLILVVFFSFTKESGGGYAFTLENYKEVIDPIYMKVFGRSILLAGGATLICLIVGYPVAYIISKARVSRRGSLILLFILPMWMNFLLRTYAWVAILGKNGLLNTFLGWFGIQPLAILYTNFAILLGMVYNFLPFMVLPIYTALSKMDNDLINAAHDLGANNMTVFRKIIFPLSLPGVMSGITMVFMPAVTTFAISRLLGGGKIMLVGDLIEQQFTVVGDWNFGSAISIFMMIVILISMSIMSKFGDESDKEGGGLLF
>NC_009089.1|WP_011861075.1|1214567_1216586_+|N-acetylmuramoyl-L-alanine-amidase
MRRNTKLLTTGILSMAIVTPTMAFATESNAMENNADLNINLEKKSIVLGSTSKVSVKFKEKPDADSITLKYKCYDMPLDTTLNYNQSTESYEGTINYNKDPEYLNVWELQGITINSKNNPKTLNKQELEKMGLNLKDYNVTQECIIEDITSRKDVNKYLRKTSAPITELTGSDRYETAVKISKEGWKNGSDKVVIINGDVSIDGIISTPLATTYNAPILLVEKNNVPNSVKSELKRLNPRDVIIIGDENAISKTTANQIKSTVNASQTRLKGSNRYETSLLIAKEIDKNHDVEKVYITNANGGEVDALTIAAKAGQDKQPIILTDKNSITDNTYKWLKSEDLQNAYFIGGPQMISTNVINKVNDITKDNVTNNRVYGADRHETNANVIKKFYTDDELEAVLVAKSDVLVDALAAGPLAANLKSPILITPKTYVSAYHKENLEAKSANKVYKIGGGLTSKVMSSIASSLSKHNTTPTEPGNSGGKTVMIDPGHGGSDTGTTGKPLGGIREKDYTLNTSLATTEYLRSKGFNVIMTRDTDKTLSLGNRTALSNSLRPDLFTSIHYNASDTTGNGVEVFYKLKDKDGGTTKTVATNILNRILEKFNLKNRGAKTRTLSTDPTKDYLYVLRNNDMPAVLVECAFLDNEKDMSLLNTSNKVKEMGTQIGKGIEDSLK
>NC_009089.1|WP_011861076.1|1217090_1219103_+|N-acetylmuramoyl-L-alanine-amidase
MRRNTKLLTTGILSMAIVAPTMAFATESNAMENNADLNINLEKKSIVLGSKSKVSVKFKEKPDADSIKLKYKCYDMPLNTTLNYNQSTGAYEGIINYNKDPEYLNVWELQGITINSKTNPKTLNRQDLEKMGLNLKDYNVTQECIIEDITSRKDVNKYLRKTSSPITELTGSDRYETAVKISKEGWKNGSDKVVIINGDVSIDGIISTPLATTYNAPILLVEKNNVPNSVKSELKRLNPKDIIIIGDENAISKTTANQIKSTVNASQTRLNGSNRYETSLLIAKEIDKNHDVEKVYITNANGGEVDALTIAAKAGQDKQPIILTDKDSITDNTYKWLKSEDLQNAYFIGGPQMISTNVINKVNGITKDSVTNNRVYGADRHETNANVIKKFYTDDELEAVLVAKSDVLVDALAAGPLAANLKSPILITPKTYVSAYHKDNLEAKSANKVYKIGGGLTSKVMSSIASSLSKHNTTPTEPGNSGGKTVMIDPGHGGSAPGNSSGGMIEKDYNLNTSLATTEYLRSKGFNVIMTRDTDKTLSLGNRTALSNSLKPDLFTSIHYNGSTNKQGHGVEVFYKLKDKNGGTTKTVATNILNRILEKFKLTNRGIKTRVLPSDSTKDYLYVLRSNDMPAVLVECAFLDNENDMSLINSSAKVKEMGTQIGKGIEDSLK
>NC_009089.1|WP_011861077.1|1219344_1221258_+|hypothetical-protein
MEYLFEKSSLKEYGNEALDKYRELLDKTGNNSRCILLLVPNNNTKIRYERALRLNYSEELKITTYISFVKKELVKYWPLIIEKCDGISTKVVSPTFISNSLSEYLIVQKVKEKRIQEGYFEDITGTNKSIANSIMTNINKSAFNLIDFDFIGEKIYSSKKNKDSIYRFSYTQMDEIISYYINSLLSNSILDNALSIYLYNQYLLNDDFYLKNLFTEVRYIIVDSLESSSNAEVDFITEALDNTLQSYIYFDYSRDYSVFNNVDIDYINEKIISKIKSKEENIKKKEIRIEDLYLLPANIELNQSSQLYNEMLDLISEKVISLIEEDVSPRDIAIISPINNSILEHQIRDSLIEKNIDVFSTKKDKKAVDYPYGNALVVATCIFYGYLDFIKEDEYLSFLETLLEINRIKAFKIFNETRHLSIDDIDEHSQYREILQYIEEKKKSDIKIHEFLTQFYIDKMLNLKEGKKNVGLCKKIIAESESFSESLSLLGMKKEKIFVEALKSTINDYYSVVDIEELKSKDKIVITTPYSYISSNIDRSIQIWVDIGSNAWNMKIEKDISNLIVLRKSFEEKKIYTNEMEEYYKKYYLYNTVYNLLLNAKKIYAFKSEYAINGYIQESILYSILLKISHKGDKNYD
>NC_009089.1|WP_003437942.1|1221250_1223470_+|ATP-dependent-helicase
MININYREDQIPIINYDNGTMAVPAVPGAGKTFIITNLVAKLLLEQKHKGGKILILTYMNSAVNNFKGRIRKILEENKIDDTNSYEVMTIHSLAVKIIKEKPEVVMLSEDFNIADDLQKSIILNECISRFRFEGGERAFRWFLKEQKDERWKEITLEAWERGFFEFAGNAISELKYKGISPDKLEEILSRGHKGMLKIILPIYKLYDRKLKQNGLLDYDDILILAEKTLSLDEGLRKKFQTRYKYIFEDECQDSNEIQGNIIKIISSENKNLVRVGDINQSITGTFSSSDPKFFKEFINSADFCYRMDMSNRSSKDILDLANTLVKYVTKEFRQKECRHALEDMQIKTVPNGMGYKENPNPEHYNINVKWYESWKIEIEQTARYVKGIKNKYPDKSIGILVPFNEQVTQVAKELRENNLTFEELGPNSLNKRKVINNIAYIIDFMLHCDDVEKLIVVLNKVFIDTDNEEEIKYFLEELKNYSTEEIIYNFEFSKLDNDLIEFKEESDIYLSFKRGIDIIKQILEYPIIRLDLLVLFIGKKLNLEKEDKAVLDYISFYIKYLVSENINMDLEDVYNLLFDVKNRVFNHIIDVVYEINGYEPEPGSITLCNYHKSKGMEWDCVFLLGLVEYNFPDNINQKFQSDKWYLKEKYKNPMAIIKSEVEAILKGSISTDYAHKTKIDSINEKIRLLYVGITRAKEMLVLSGSAYRDESDIGNKRKEQKPCIYLSRLNQHIIEKRSN
>NC_009089.1|WP_003428590.1|1223578_1224409_+|PD-(D/E)XK-nuclease-family-protein
MNDKLKYFSYSQNSINTYKSCPLKFKYKYIDRINWKNDDVGSREYYETLKTGRDFHLICERYFSNIPLGIYFNEDDKNSKKFLKWMENIKKVVPIEKGKTYLPEYEVRMTLNGDIIQAKYDLVVIGNNNIEIWDWKTESKKIDYKHVENRIQTIVYMFLAKEVIPKVLKMDINVKDINMRYYQPEFDDLPITILYDEEKHEANRNKIQNYISMIKNTNYEEHTYEDNLYNDIEKVYNKEERMCYRNKKHCKYCEFNKLCNGKEIDYSILEAEIYGT
>NC_009089.1|WP_011861078.1|1224398_1227866_+|helicase-exonuclease-AddAB-subunit-AddB
MGLRFVLGRSGSGKSTYILDEIKKEAQKNETTSIILLVPEQYTFEAENRVSKLFLGKEKDKYLRVRVLSFKTLSNIVFSQVGGLTDVNINSSGKAMMVYRAIEDVSEELNVFSKSKSQSGFVSSITDMISEMKQYNISPEMLENISGELDNETLSLKLKDISKIYNSFEGKLHENYVDAQDMLTSLTSKIELSSYLDGACVYIDEFTGFTPNQYNVIKSILNKSKSVNISLTVDDINYIGYSKSDMFSRTKFTYSKLTQLCNEEGIKILPQVNLNTGVIKRFEKVKELQHLERFYNAYPYKIYSNPTENIKIKEFNNLYSEVEEIAREIVHLVRDKNVRYRDITIATRDLNRYDFLVHSIFNEYNIPNFIDKKREAKSNPIVILIISALEMKNRRYGYETMFRYLKSGLIGIDNDDINLLENYVLANGIKGKKWFDEKWDYRITQSLSGQESEFELELKEKINEIKNRVLEPIVILQEKLRGKNRVKEICRYIYEFLLDINMPETIESLIVNFKDKGELDVANQYSQVWDIVVDILDQMVELMGDEIISLEKFIKLITLGFDEYELGLVPPSIDQVLVSSVDRMKNPDTKYLYLVGTTDGVFPLITKDSGILSDNDRESLGNKGIEVDIDSKTRSFEEQFLVYKALTSTSKNLTITYPISDHEGKTLRPSIIISRLKKIFPNIENKSYLVEENKNTDKDILKKITVKSPTFNELINVIKNYDSDGYNTEEINSIWLDIYRYYLKDEIYSSITKKVIKGLSYTNQVHKIEEKKIRSLYKSNSLSISRLEKYAECPFAYFIQYGLKAKKRKEYSFTPPDLGTFIHNILDRFSKELLQDNLTWRDIDEKYIELKIGIIVDEIILKIPGYILNSSERYKYLAYRLKNMLTTAITIISQQIKQGSFEPIDYEVKFGDNGKYPPIKMVLENGQEVSLIGQIDRVDEFEEGENKYIRIIDYKSGNKSISLTEIYYGLQLQLLVYLDAILESAKDEDMNINPAAILYCRINNPIAKFNEDKDDEEIQEAILKELRMKGLVVKDSHIVKEMDKSLIDGERKNSLVIPVGLTKDGNVGKSTSAISYEDFKLLRKYVRHAIKDLCEEMLSGEIRIAPYKHKDGTSCDFCDYSAICQFDSTIKDNKYKNLNNKSNEEIIKMMKGDVN
>NC_009089.1|WP_011861079.1|1227865_1231693_+|helicase-exonuclease-AddAB-subunit-AddA
MSSPKWTKEQLEVIESRECNLLVAAAAGSGKTAVLVERIIQMITSRENPIDIDKLLVVTFTNAAASEMRERIGDAIGKALDENPENKHLQNQLVLLNKSSITTIHSFCLDVIKSNFHRINLDPNFRIGDQTECAILKQEAIEEVFEDLYEERDEGFLNLVESYAERGGDKEVQDIILGIYSFAMASPEPKKWLIDSAERFNIDENFDFSQSIWARAILDTVKIEINGLCLNMERALKEVESIEELETFAEKLSVEYKKIADISQACNKSWDEAYKKMASMSFENYVKGVKRISKDAPSYIKESKEKAKTIRDKTKKSLESIVSATFNKDNDSIREEIKYLYNIVKPISSVVLRFEEEYSNKKREKGIIDFNDIEHFALNILTDVDEKGNIVPSDIAVGYRNKFYEIFIDEYQDSNLVQEVLLKAVANTETPNRFMVGDVKQSIYRFRQAKPELFLQKYNNYNDKKGSSHRKIMLYKNFRSREEVVDAVNYIFENIMNENIGEIEYTEKERLNLGANFNVDTDEKSIIGGATEIHLIQKDNKLDDDIINDKDDRINNKENEIEEEEKLDNIQLEARMVGNIIKDLMKVNEDGKIQKVYDKGIDGYRPVEFRDIVILLRATSAWAPVFADELMNMDIPTYADVGVGYFDTIEIKTILSLLQIIDNPMQDIPLISVLKSPIFGFTPEDLIDIRVQSKDKIFYEVLKSTAEYDGFTDSQNENESEFIPSEECINKSKDFLIKLKEFKEKSMYMSTDEFIWYLYTRTGYYAYVGALPGGSQRQANLKVLFERAKQFEETSLKGIFNFVNFIEKLKKSSSDMGSAKTLGENANVVRIMSIHKSKGLEFPVVICSAMGKNFNTQDFKKSILYHHNLGYGPQFVDYERRISFPSIAKEALKSKINIENLSEEMRVLYVAFTRAKEKLIITGSTRNIQDSIKRWSNGIESLDTISQYEILKGKNFLDWIMPCVLRHRDLSNLLEEVGLDAVFNVEHNSKWYGKLWNKNDILVEKKSDEEKESIEEILEKIDVNNPDSDYYGEIEEKLNYIYPYEFSTRKPATISVTEIKKIQNNYEEELINTIFEQKVILKKPLFIQNEEEREKISGTERGTIVHLVMEVLDLKNVSSVNDIKSQIRGFVSKGIITEKQASIVNPYKIYKFFASNIGKRMLNAEIINREKSIYAQVNMKDIYIYEKLINNDDKKLYDNESVMLRGIVDAYFEEDNQIVLVDYKTDFVNEENINQIIEKYKKQLDLYADIIETLTGKSVKEKCIYLFGVDEAVCY
>NC_009089.1|WP_003437948.1|1231738_1232950_+|exonuclease-SbcCD-subunit-D
MRFIHTSDWHLGKSLEGHSRIEEQAKFCEEFIKIVESNEIDMVIIAGDVYDTSNPPAQAEKLFYQTVSRLANNGQRCVLIISGNHDNPERLSAITPLAHEQGILIYGYPLSATIEAKYKGFEITYATQGCTKLNINGENIVVATLPYPSEKRLNEVFSSEDEFEKQKNYSEKVGDIFRSLEENFRSDTINIAVSHIFVIGGESTESERPIQLGGSFLVERKDLPEKAQYTALGHLHKQQKASERLNAYYSGSPLQYSKDERAYTKGAYIVDIKAGEKPIIEDVYFNNYKPIEVFKCNGIEEALDICEQNQDREIWSYFEINTDEIISQNEIKKMKELLKDIIEIKPIITSCYEQESVDIKEKSMAELFREFYSFSKGVEPKGELMDLFLDIISEEGESADETN
>NC_009089.1|WP_011861080.1|1232936_1236464_+|AAA-family-ATPase
MRPIRLELTGLNSYIDKQVIDFEKLIERGLFGIFGTTGSGKSTILDAITIAMYGNISRNTKEYINSVCDKAIISYEFEIGSKNTRRRYIVDRTIARSKTGTKTSNARLIEVLNDNTQNVLADKVVEVNEKVAQVVGLTANDFTRSVVLPQDKFNEFLRLSRADRRDMLERIFNLEKYGRSLGEKVKKRKNIQLQNLKDLKSKLSQYDGITEEVYNNINQELIELKNLEKDKNNALDLAQKSYEESKTVYEEQLKLEKNELRKNELDLKNSEIKEKIALVENDSNAKKVDPYISSVQNLEKKIDEDSFAVSNLEKKLAILNQELEVTKNRYEKINKIKNEEVPKLSEEKIRLQQAIKLEEELVLLDRELKELKESGINLNKTKVELEKVKQVSESRKDAVTKSIKEVEGKIDKVNISAELKQKIFLAYEYEKDYNNVLEEKNQKLNKLEEILKETENINLKVRYIDKDKNDVNRNLENLSLHLDVLLKKCPGKSADLLLKSEYVTELRNKANNTKENEIKKSSIQDELKIILESKFNTEREVNLLNEKLENNRKNRDDLEKELEELKYLNLASELRRELKENMPCPVCGSKHHENHDITKYDENISFVKEKLEKLEKEKISIRNNIEELNAKVSGYLSIEKMKTKELEDVKGKLGEIPSSQLLKKLDEEQRKLALLKSNIQEWEKEKESTENKVTLAKEEKNKIEKEELKIRESLNNYKKLTRDLNIEIEGLENKCKKIKQEYLGLKTITKVSNLLSKVKEIRENEKELELLSTGHSNLLKNRDSLDIKIRENESKLHEIEIELIKARELYVEKKLSRDNKYKEVISITKGDLAKNLLHNVEENICKILEQEESSKKKLEEQRLEYEKNIAEKHNIDGRLKTAKEQYKDQKSTLNKLLAENKFESIYAVKRALLDTDAVKKLIEEILEHEEEQKLLSFKIKSSKEKLNGRSIKKEYFEQLKDEIYNLKVEIGNISKDIGANQNQLITLKDSLDKINDFNKQLKVVEHNVDLLEELDKCVQGNKFVEYVSTNQLKYIALEASKRLDGITKGRYALEIDSTLNFVMRDNFNGGERRSIDTLSGGETFLTSLSLALALSSQIQLKGSAPLEFFFLDEGFGSLDSELLEIVIESLERLHSNNLSVGIISHVEELKNRVPVKLLVSSSEAGIGSKVKIEYS
>NC_009089.1|WP_009888861.1|1236594_1237848_+|HlyC/CorC-family-transporter
MLESPNNLIQIIFLIVLLIGSAFFSASETALMSLSKIRIRYMQDEGVKGAKLVSSLIENPNKLLSSILVGNNVVNIAATSISTSLFIGLMGEKGVALATAVMTVLVLIFGEITPKTIAANNSEKVSLLVSKPIKAIIFILRPIVWIFNIITNIIFKLFGITNKGAKSFITEEELKTMVNVSHEEGVLEMEEREIINNVFEFGDMQAKNAMVQRIDMVAIDMEDSYDEIIQVFKTEKLSRMPVYEETIDDIVGILNIKDIIFLSDEEIESFDIKNYMREPFFTYEFKKITQLLEEMKLEKSQMAIVVDEYGGTSGLLTIEDLVEVIVGDIEDEYDEEEDEIQVIKEDEYIVDGSTKIGDVNELIGVNLESEEFDSIGGFIIGHLSRLPEENEVIEVDNIRFCIESIEKNRIKKIRIYT

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Crispr_ID: NC_009089_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_6

1434756-1435639

Orphan

I-A

Consensus_repeat	Method
GTTTTATATTAACTAAGTGGTATGTAAAG	PILER-CR
GTTTTATATTAACTAAGTGGTATGTAAAG	CRISPRCasFinder
GTTTTATATTAACTAAGTGGTATGTAAAG	CRT

13 spacers

The CRISPR arrays of NC_009089_6

>merge|NC_009089|6|1434756-1435639|PILER-CR,CRISPRCasFinder,CRT
GTTTTATATTAACTAAGTGGTATGTAAAGAAGCTTTCATAGCATCCTCTTCTGAACATTCATCACTGTTTTATATTAACTAAGTGGTATGTAAAGTAGTAAGTTAACTCATACATACCACCTTCCCCATAAAGTTTTATATTAACTAAGTGGTATGTAAAGTATTATAAATCTTTAAATAGCCTTCTAAGCGTCTACTAGTTTTATATTAACTAAGTGGTATGTAAAGACATTATCAACATCATCTAATTTTTTTGTCACTGTAGTTTTATATTAACTAAGTGGTATGTAAAGTAAGAATTAACTAATGTGAATTTTTTAGACATGTCATGTTTTATATTAACTAAGTGGTATGTAAAGACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATAGTTTTATATTAACTAAGTGGTATGTAAAGTAACAAAATTTGCGAGTACACTTATTTCTAATATATCGTTTTATATTAACTAAGTGGTATGTAAAGATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAAGTTTTATATTAACTAAGTGGTATGTAAAGTGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTAGTTTTATATTAACTAAGTGGTATGTAAAGCGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTAGTTTTATATTAACTAAGTGGTATGTAAAGTTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTAGTTTTATATTAACTAAGTGGTATGTAAAGAAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATTGTTTTATATTAACTAAGTGGTATGTAAAGAACAAAAAAGATACATCTGTAACTAATTTTTATACTGTTTTATATTAATTAAGTGGTATGTAAAG

>NC_009089|6|3|1434756-1435639|PILER-CR
GTTTTATATTAACTAAGTGGTATGTAAAG	AAGCTTTCATAGCATCCTCTTCTGAACATTCATCACT
GTTTTATATTAACTAAGTGGTATGTAAAG	TAGTAAGTTAACTCATACATACCACCTTCCCCATAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TATTATAAATCTTTAAATAGCCTTCTAAGCGTCTACTA
GTTTTATATTAACTAAGTGGTATGTAAAG	ACATTATCAACATCATCTAATTTTTTTGTCACTGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAAGAATTAACTAATGTGAATTTTTTAGACATGTCAT
GTTTTATATTAACTAAGTGGTATGTAAAG	ACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAACAAAATTTGCGAGTACACTTATTTCTAATATATC
GTTTTATATTAACTAAGTGGTATGTAAAG	ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	CGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	AAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATT
GTTTTATATTAACTAAGTGGTATGTAAAG	AACAAAAAAGATACATCTGTAACTAATTTTTATACT
GTTTTATATTAATTAAGTGGTATGTAAAG

>NC_009089|6|6|1434756-1435639|CRISPRCasFinder
GTTTTATATTAACTAAGTGGTATGTAAAG	AAGCTTTCATAGCATCCTCTTCTGAACATTCATCACT
GTTTTATATTAACTAAGTGGTATGTAAAG	TAGTAAGTTAACTCATACATACCACCTTCCCCATAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TATTATAAATCTTTAAATAGCCTTCTAAGCGTCTACTA
GTTTTATATTAACTAAGTGGTATGTAAAG	ACATTATCAACATCATCTAATTTTTTTGTCACTGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAAGAATTAACTAATGTGAATTTTTTAGACATGTCAT
GTTTTATATTAACTAAGTGGTATGTAAAG	ACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAACAAAATTTGCGAGTACACTTATTTCTAATATATC
GTTTTATATTAACTAAGTGGTATGTAAAG	ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	CGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	AAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATT
GTTTTATATTAACTAAGTGGTATGTAAAG	AACAAAAAAGATACATCTGTAACTAATTTTTATACT
GTTTTATATTAATTAAGTGGTATGTAAAG

>NC_009089|6|2|1434756-1435639|CRT
GTTTTATATTAACTAAGTGGTATGTAAAG	AAGCTTTCATAGCATCCTCTTCTGAACATTCATCACT
GTTTTATATTAACTAAGTGGTATGTAAAG	TAGTAAGTTAACTCATACATACCACCTTCCCCATAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TATTATAAATCTTTAAATAGCCTTCTAAGCGTCTACTA
GTTTTATATTAACTAAGTGGTATGTAAAG	ACATTATCAACATCATCTAATTTTTTTGTCACTGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAAGAATTAACTAATGTGAATTTTTTAGACATGTCAT
GTTTTATATTAACTAAGTGGTATGTAAAG	ACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATA
GTTTTATATTAACTAAGTGGTATGTAAAG	TAACAAAATTTGCGAGTACACTTATTTCTAATATATC
GTTTTATATTAACTAAGTGGTATGTAAAG	ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAA
GTTTTATATTAACTAAGTGGTATGTAAAG	TGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTA
GTTTTATATTAACTAAGTGGTATGTAAAG	CGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	TTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTA
GTTTTATATTAACTAAGTGGTATGTAAAG	AAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATT
GTTTTATATTAACTAAGTGGTATGTAAAG	AACAAAAAAGATACATCTGTAACTAATTTTTATACT
GTTTTATATTAATTAAGTGGTATGTAAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_009889006.1\|1439732_1439948_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003438166.1\|1425670_1426345_+\|O-methyltransferase	unknown	unknown	gnl\|CDD\|226607
NC_009089.1\|WP_003419284.1\|1443636_1443831_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861147.1\|1429718_1431236_-\|recombinase-family-protein	unknown	unknown	gnl\|CDD\|238206
NC_009089.1\|WP_009902375.1\|1440933_1441251_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009889000.1\|1437256_1437475_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003433383.1\|1439205_1439550_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009896135.1\|1422881_1424207_+\|pyrimidine-nucleoside-phosphorylase	unknown	unknown	gnl\|CDD\|274244
NC_009089.1\|WP_011861154.1\|1442311_1442701_+\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|367747
NC_009089.1\|WP_003438167.1\|1426331_1427579_+\|U32-family-peptidase	unknown	unknown	gnl\|CDD\|223896
NC_009089.1\|WP_003438168.1\|1427650_1429315_+\|penicillin-binding-protein-2	unknown	unknown	gnl\|CDD\|223839
NC_009089.1\|WP_021361826.1\|1444346_1444739_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|180266
NC_009089.1\|WP_009896138.1\|1431360_1432182_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|276809
NC_009089.1\|WP_011861151.1\|1438695_1439079_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003419254.1\|1429411_1429696_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|180266
NC_009089.1\|WP_003438164.1\|1424419_1425499_+\|endolytic-transglycosylase-MltG	unknown	unknown	gnl\|CDD\|376862
NC_009089.1\|WP_011861146.1\|1421865_1422678_+\|purine-nucleoside-phosphorylase	unknown	unknown	gnl\|CDD\|350160
NC_009089.1\|WP_011861148.1\|1432372_1433800_+\|cell-wall-binding-protein-Cwp26	unknown	unknown	gnl\|CDD\|380277
NC_009089.1\|WP_009889012.1\|1443025_1443535_+\|glycopeptide-resistance-protein-VanZ1	unknown	unknown	gnl\|CDD\|377417
NC_009089.1\|WP_003438173.1\|1436822_1436978_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003438166.1\|1425670_1426345_+\|O-methyltransferase	gnl\|CDD\|226607	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only].	2.98869e-60
NC_009089.1\|WP_021361826.1\|1444346_1444739_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|180266	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK.	8.37695e-70
NC_009089.1\|WP_011861147.1\|1429718_1431236_-\|recombinase-family-protein	gnl\|CDD\|238206	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are proteins with N-terminal DNA binding domains similar to IS607- and IS1535-transposases from Helicobacter and Mycobacterium.	1.72278e-29
NC_009089.1\|WP_011861154.1\|1442311_1442701_+\|transcriptional-regulator	gnl\|CDD\|367747	pfam03965, Penicillinase_R, Penicillinase repressor. The penicillinase repressor negatively regulates expression of the penicillinase gene. The N-terminal region of this protein is involved in operator recognition, while the C-terminal is responsible for dimerization of the protein.	1.78815e-22
NC_009089.1\|WP_009896135.1\|1422881_1424207_+\|pyrimidine-nucleoside-phosphorylase	gnl\|CDD\|274244	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase. In general, members of this protein family are designated pyrimidine-nucleoside phosphorylase, enzyme family EC 2.4.2.2, as in Bacillus subtilis, and more narrowly as the enzyme family EC 2.4.2.4, thymidine phosphorylase (alternate name: pyrimidine phosphorylase), as in Escherichia coli. The set of proteins encompassed by this model is designated subfamily rather than equivalog for this reason; the protein name from this model should be used when TIGR02643 does not score above trusted cutoff. [Purines, pyrimidines, nucleosides, and nucleotides, Other].	0
NC_009089.1\|WP_009889012.1\|1443025_1443535_+\|glycopeptide-resistance-protein-VanZ1	gnl\|CDD\|377417	pfam04892, VanZ, VanZ like family. This family contains several examples of the VanZ protein, but also contains examples of phosphotransbutyrylases.	2.65878e-17
NC_009089.1\|WP_003438167.1\|1426331_1427579_+\|U32-family-peptidase	gnl\|CDD\|223896	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones].	4.69627e-145
NC_009089.1\|WP_003438168.1\|1427650_1429315_+\|penicillin-binding-protein-2	gnl\|CDD\|223839	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane].	5.50889e-97
NC_009089.1\|WP_009896138.1\|1431360_1432182_-\|hypothetical-protein	gnl\|CDD\|276809	sd00006, TPR, Tetratricopeptide repeat. The Tetratricopeptide repeat (TPR) typically contains 34 amino acids and is found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans. It is present in a variety of proteins including those involved in chaperone, cell-cycle, transcription, and protein transport complexes. The number of TPR motifs varies among proteins. Those containing 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accommodate an alpha-helix of a target protein. It has been proposed that TPR proteins preferentially interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes.	1.11852e-08
NC_009089.1\|WP_003419254.1\|1429411_1429696_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|180266	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK.	1.70744e-41
NC_009089.1\|WP_003438164.1\|1424419_1425499_+\|endolytic-transglycosylase-MltG	gnl\|CDD\|376862	pfam02618, YceG, YceG-like family. This family of proteins is found in bacteria. Proteins in this family are typically between 332 and 389 amino acids in length. This family was previously incorrectly annotated and names as aminodeoxychorismate lyase. The structure of YceG was solved by X-ray crystallography.	3.18128e-117
NC_009089.1\|WP_011861146.1\|1421865_1422678_+\|purine-nucleoside-phosphorylase	gnl\|CDD\|350160	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA). Human PNP catalyzes the reversible phosphorolysis of the purine nucleosides and deoxynucleosides inosine, guanosine, deoxyinosine, and deoxyguanosine. Patients with PNP deficiency typically present with severe immunodeficiency, neurological dysfunction, and autoimmunity. Escherichia coli PNPII, product of the xapA/pndA gene, catalyzes the phosphorolysis of xanthosine, inosine and guanosine with equal efficiency and has been referred to as xanthosine phosphorylase and inosine-guanosine phosphorylase. E. coli PNPII is also capable of converting nicotinamide to nicotinamide riboside, and may be involved in the NAD+ salvage pathway. It is one of two purine nucleoside phosphorylases found in E. coli, which also contains PNPI, which displays a different substrate specificity and belongs to a different subgroup of the nucleoside phosphorylase-I (NP-I) family than PNPII. NP-I family members accept a range of purine nucleosides as well as the pyrimidine nucleoside uridine. The NP-1 family includes phosphorolytic nucleosidases, such as purine nucleoside phosphorylase (PNPs, EC. 2.4.2.1), uridine phosphorylase (UP, EC 2.4.2.3), and 5'-deoxy-5'-methylthioadenosine phosphorylase (MTAP, EC 2.4.2.28), and hydrolytic nucleosidases, such as AMP nucleosidase (AMN, EC 3.2.2.4), and 5'-methylthioadenosine/S-adenosylhomocysteine (MTA/SAH) nucleosidase (MTAN, EC 3.2.2.16). The NP-I family is distinct from nucleoside phosphorylase-II, which belongs to a different structural family.	5.04514e-174
NC_009089.1\|WP_011861148.1\|1432372_1433800_+\|cell-wall-binding-protein-Cwp26	gnl\|CDD\|380277	NF033435, S-layer_Clost, S-layer protein SlpA. In Clostridiodes difficile, the S-layer protein precursor, SlpA, is one member of a large paralogous family of protein that share several cell wall-binding repeats. SlpA is cleaved into a larger and smaller protein. The S-layer protein itself is important to adhesion, and portions of it are highly variable, and then N-terminal and C-terminal are well-conserved.	8.77043e-18

>NC_009089.1|WP_011861148.1|1432372_1433800_+|cell-wall-binding-protein-Cwp26
MKIKKLLTIGLSLSIFIASCPISANALDKIESIKGADKYETAGIIADKQNYTTAILINADSTMADGLSASGLAGAINAPILLTKKNNIPNATLKRLEKAKKVYIIGGENSIDKYTETVLKGKGIEIKRLQGSDRIKTSYNVAKEINSINKVNKVILTNAFKGEPDAMSAAPVAVRDKAAIVLTDGKSVPFNTTGVESYVIGGTSSMNDKIVKDTNSTRLGGTDRYDTNKKIINKFYSGVKEFYIASGTDLVYALVGSTVAKNNAIVLVDNDSNKSVLKSTTKLTAIGNLSDSILQQCLNVTKNIGDSNTGREYTVEDAANAVKKLLGVKKFYYEPNYSEDEDLIFLLDKNFDFSGKEYYVFAYIKQGAEGDVRYCVAKNDMSKVYTYDVNGNMKVCNPDDYKNKGSITEEQAKQIALKECAKRHKVSINNLVVDMIDFRDDIYSGNVYAVKINSKNSNGTFGWFFIDIETGKIYN
>NC_009089.1|WP_009896138.1|1431360_1432182_-|hypothetical-protein
MIISKKITAILVSFLIMISMVGCAPKESATEVAKKYLDSIEIKDYEVAYNLLSKDSKESVSLEKFEEYQDTLFKLQTLKDYKLGEENKVEKYKYSNKEYTNLVKIKETDTIKYITENKEDTANFDRYFIIEDNEYKLLWHKDFKRALSSNYVKIARSETEKDEDKDYNKAAIDIKKAIEIDDKNPLAYYTQSYIYIELQRYDEALKSIDKYLEYLDKNNEAYKIDASDAYNLRGVIFMSKSEFNKARESYNKALELNPDNEYAKTNLNDIKGL
>NC_009089.1|WP_011861147.1|1429718_1431236_-|recombinase-family-protein
MSVAIYLRKSRADEEAEKQGEFETLSRHKSTLLKLAKEQNLDVIEIKEELVSGESIIHRPKMLELLKEVEENKYDAVLVMDLDRLGRGDMKDQGIILETFKESKTKIITPRKTYDLTDEFDEEYSEFEAFMARKELKLISRRMQRGRIKSVEEGNFIGTSAPFGYDAVTTGRKERILVPNKDADVVRTIFDLYINEDMGCSKISKYLNNLGIKTATGANWYNSAITNIIKNKVYCGYIQWQKKDYKKSKNPNKIKTVKLRPKDEWIEAKGKHEPLISEITWKKAQNILKKNGHVSYGNQIKNPLAGIVICKNCGRPLVYRPYADHDYIICYHPGCNKSSRFEFIEAAILKSLEDTVKKYQLKASDIDLDKNNKDSNIEFQKRVLKGLETELKELGKQKNKLYDLLERGIYDEDTFIERSNNISSRTEEIKDSIKTVKNRLSTVKKDNSKIIEDIKTVLSLYHDSDSLGKNKLLKSVINKAVYYKSKEQKLDSFELMVHLKLHEDQ
>NC_009089.1|WP_003419254.1|1429411_1429696_-|sigma-70-family-RNA-polymerase-sigma-factor
MCNEISLLDILGTEANYVLDEVELKVQVGKLYEQLNKILTPREREIVQLRYGLTPYGYKTQREIAQKLDISRSYVSRIEKKALKKLEKELVQES
>NC_009089.1|WP_003438168.1|1427650_1429315_+|penicillin-binding-protein-2
MSKKKTPFLKKVGKRSWCIFTIILIIYSVLIYRLVDIQVLKGDKYKQSVESQSVEKVELNSGRGIIYDRNNKKLTDTSKSQVLIVEKEKLNNNYKILELIKKATKMNDLDIYKAVQEQLTRPIIQIQTKNIDKSMKKELEKNGIMVEEKTMRYAKDGLLSHTIGYIKEDDKSGQSGIEKSMDSVLRNSNEKYISAFKAGDAGNEKSLNILKGSVKTVDNKDKDRHLKTTIDYNIQKKLEQILNKEENPTAAIISEASTGEILAMCSRPNFDQNDISKSLKGKNGEFENRVIKATYPPGSVFKMVVLFSALENGVIDENYTYNCTGKTKVGNTNEILRCNKRDGHGFQNLRQAFSNSCNPAFLDIAMKLGKEKILKSAEKLHLFEKVDIGLDEEKIREAPKNISIRNLAIGQENIEFTPLQINQMTQIIANNGTFKPLYLYKSLVDNNMNTIKTYKSSKKEELISPYVCTQVKEYMKSVSRIGTAKDLKDIEGGCGVKTGTAQSSLNKKAIDHGWITGFYPEERPKYVITVLVEGTQKGNKSATPIFKEICESIK
>NC_009089.1|WP_003438167.1|1426331_1427579_+|U32-family-peptidase
MELNKVELLAPAGDLERLKIAITYGADAVYIGGEIFGMRSAAKNFSKEDMAEGVAFAHERGKKVFVTVNIIPHNEDFLQLEDYLLELEEIGIDAVIIADPGVLSVIKKVIPNMEIHLSTQANTTNYLSANFWYEHGIKRVVVARELSFDEISEIRAKTPLDMDIEAFMHGAMCISYSGRCLISNYMTGRDANKGSCAQSCRWQYHLVEEKRPGEYFPIYEDERGTFFFNSKDLCMIEYIPELIKSGITSLKIEGRMKTAYYVATVVRAYRMAIDEFYRDPENWKFNPMWMEELKKGSHRHFTSGFYLNKPTTEDQNYQSASYVRNYDFIGIVRETEDEDGLIVVEQRNKMCVGDEIEVMGPYKETMFTKIEEMYNEEGEAIESAPHPRQIVKLKLSVKVGKDYMLRKVIEEKVEE
>NC_009089.1|WP_003438166.1|1425670_1426345_+|O-methyltransferase
MSNIVNDLVEDYIRVTLKEKEGFLKDLEIYAEENSVPIIHKEVSDLLKVLLKVQKPKRILEVGCAIGYSSIFFATIIGKDADIITVERNEKMIEKAKENIKLAGFDNNITILEGDAEEKLSQVQGEFDLIFIDAAKGQYKLFFDLVIDKLKDGGLLVSDNILYKGMVAHDDFVVRRKKTIVKRMRNYLDYICNCDYLSTSLVPIGDGVALSYKESKRGDVDGIK
>NC_009089.1|WP_003438164.1|1424419_1425499_+|endolytic-transglycosylase-MltG
MNFKENRLKIAVLIIVILIILAGIFVFIQIGPYDKNNKKDVIIDVPSGASVGKISDILYENKLIKNELLFKLLVKVSNKAPSIKSGTYLLNQSYSNNDIISLLVSGKIYQDGIKVTIPEGATSKEIIAMLVSKNLGDKATFENLIKKPQEFYDKFPYLKEDGITSLEGFLYPETYYFNSKKQSEEDILSEMLKVFDSKYTDKFKKKQKELNMTLQEVMEMASIIEKEAVLDKDRPIIASVFYNRLKVGMPLQSDATIQYIFEERKKIVTYDDLKIDSPYNSYKNKGLPPTPISNPGIKSIEAALYPEKTDYLYFVAKIDGGNNYSTNYQDHLKYVKEYKEARDKQSKDTKATNKENTKK
>NC_009089.1|WP_009896135.1|1422881_1424207_+|pyrimidine-nucleoside-phosphorylase
MRMYDIIKKKRDNLELSKKEINYFIENYSKGDIPDYQASALLMSIYLNKMNKQETVHLTEAMMNSGDMINLSEIDGIKVDKHSTGGVGDKTTIALIPLVASCGAPVAKMSGRGLGHTGGTIDKLESIPGFSTEMEISKFIDSVNKSKIAVCGQSAKVAIADKKIYALRDVTATVDNISLISSSVMSKKLASGADAIVLDVKTGDGAFMKTLEESFELAKSMVDIGTGMNRDTIGIVTDMDEPLGFAVGNSLEVIEAIETLKGNGPKDLVELCEVLGAYMLVLSKVAHDFEDGVEKIRESIKSGTAIQKLKEFIENQGGNKDVVDDYSLFKKSKYKYPVKSTKSGYISKIKAEDVGVSAMILGAGRETKDDILDLSAGIILEKKVGDYVNEGEVLAYMYYNDEQKLSLAKGRFIDSYSIVDSKIEKNKLIYGIVTKEEIKKF
>NC_009089.1|WP_011861146.1|1421865_1422678_+|purine-nucleoside-phosphorylase
MFEKIAQSSKFINSKSNIKPKIGLILGSGLGDLANDIEDPVTIKYSEIPNFPVSTVAGHAGQLVIGKLEGKEVIAMQGRFHYYEGYSQKEATFPVRVMKELGVEILIVTNAAGGVNKEFKAGDLMLIRDHINFSGSNPLVGKNDDRFGARFPDMSDAYSSKYVDVVKNCAKECNIDVKEGVYMFFSGPNYETSAEVRMAQILGADAVGMSTVPEVIVASHSNIGVIGISCITNMAAGILNQPLSHEEVIETTQKVKSEFMNLVKTTVKNL
>NC_009089.1|WP_003438173.1|1436822_1436978_+|hypothetical-protein
MALDVKIEVKIIKDVVILNITHWKKETSLLTVKIARSQGDLSYVKYFANES
>NC_009089.1|WP_009889000.1|1437256_1437475_+|hypothetical-protein
MKILQQFKPYKYDKEKNIEYDEKIIANQNTEVYIVYPRISDEENRRRWEEFNEVAKEVAINIAMKKVETVES
>NC_009089.1|WP_011861151.1|1438695_1439079_-|hypothetical-protein
MRKKFFIGILIVLIISVIAILNIKNDKNVFIGESENWKAKFVTTEGHSKLEIKYKNSKDVVEQKFNYSYQFIDGEDAVVVVKNEILEVGQEKAIKIQRPGLYSNRESSYKLIISWNGNEETINLKKK
>NC_009089.1|WP_003433383.1|1439205_1439550_+|hypothetical-protein
MNYRLKKSVTTILSLLIMTILLPTNASASKVEDSSMKVMYSEKQVTDMDKLYDMAKNGITDVKSSNEKGIIKNARTGESIYVDSISTTQLLEVKQSKNLTSKIYSKTVFLILIQ
>NC_009089.1|WP_009889006.1|1439732_1439948_+|hypothetical-protein
MHINQTGFISNGLGIKQQQKKEPTSNSFSYNAPSSWKPVGRDSVQYNCGFELIATLVREGSSWAFNFIVQP
>NC_009089.1|WP_009902375.1|1440933_1441251_-|hypothetical-protein
MNFRNIYLILMGLGIIILTTIISLIEIKIGFCNEKYFNKLESKYGNIDRKRTIKLEVLYRYVTGFEYIAIGLFTKRLDITIIAIILVATITVILYYLVRKRYITI
>NC_009089.1|WP_011861154.1|1442311_1442701_+|transcriptional-regulator
MKINKLPHAELKLMKYIWGVDDVLASRDIIEDMKLKYDWKKSTTLTFLKNLVDKGFLTTDKVDRCMHYTIAIKEKDYLKVETKSFFSFMHNNSFKSFISALHDDEVLDSKSLDKLEEYFKNLKEGDIDD
>NC_009089.1|WP_009889012.1|1443025_1443535_+|glycopeptide-resistance-protein-VanZ1
MKSRKHNITKGLFIVYIIILTWIILFKLQFDISSLETMNLRSINLVPFAGSLIINNRVDISEIILNVAIFVPFGIYVCMLKEEWSFIKKVIPIFITSLAFETLQYIFALGASDITDLIGNTLGGIIGIAVFMLLSKIFKNNTIKIINVLALIVTIIVVLFLGLVIFANL
>NC_009089.1|WP_003419284.1|1443636_1443831_-|hypothetical-protein
MSVIVMCSRCGKEIDKYRNKYITYYEKNTNAEIKVCINCALDLLEKTRENQELNIQEFQDTIIL
>NC_009089.1|WP_021361826.1|1444346_1444739_-|sigma-70-family-RNA-polymerase-sigma-factor
MAALKSFEKPLTPEEEIEYLTKFKIENDKSAKDTLIERNMRLVAYIAKKYNNSTEDQDDLISIGTIGLIKAIETYNIDKGTRLATYASRCIENEILMNIRSNKKNKTQVSLQDPIGTDKEGNEINTILYM

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Crispr_ID: NC_009089_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_7

1645194-1646018

Orphan

I-A

Consensus_repeat	Method
GTTTTATATTAACTAAGTGGTATGTAAAT	PILER-CR
GTTTTATATTAACTAAGTGGTATGTAAAT	CRISPRCasFinder
GTTTTATATTAACTAAGTGGTATGTAAAT	CRT

12 spacers

The CRISPR arrays of NC_009089_7

>merge|NC_009089|7|1645194-1646018|PILER-CR,CRISPRCasFinder,CRT
GTTTTATATTAACTAAGTGGTATGTAAATTAAAACCACTCAATTCTTAAAAGATACTGCAATTATTGTTTTATATTAACTAAGTGGTATGTAAATGGACATTTTAACCATAGACTATTTTACAAACAAACTTGTTTTATATTAACTAAGTGGTATGTAAATGGAGATTTAAAAGTTAACAACATAAAAATGATAGATAGTTTTATATTAACTAAGTGGTATGTAAATTGGTGAACAATAAAACAATCATCTAAAGACGAAGAAAAGTTTTATATTAACTAAGTGGTATGTAAATATAATCCAGAAGATGATACACTTCTTGAACAATATATTGGTTTTATATTAACTAAGTGGTATGTAAATCTATCAATATATATTTTATAAGCATAAGTTTTACGCATGTTTTATATTAACTAAGTGGTATGTAAATAACAACGTCATATATATCATCTTTAGTTGTAAGAGCAGTTTTATATTAACTAAGTGGTATGTAAATAGTTATGTCAAATTATTAGAAACTAAAAACCTAGTTGGGTTTTATATTAACTAAGTGGTATGTAAATAATATCTAAAAAAAACGACTTATATCCCATTTCTACAGTTTTATATTAACTAAGTGGTATGTAAATAATTTAGAAAAGGACTATTAGGAAGCAAAGAAAAAATGTTTTATATTAACTAAGTGGTATGTAAATAAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGCGTTTTATATTAACTAAGTGGTATATAAATAGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAAATTTTACATTAACTAAAATGTATAGAATA

>NC_009089|7|4|1645194-1645952|PILER-CR
GTTTTATATTAACTAAGTGGTATGTAAAT	TAAAACCACTCAATTCTTAAAAGATACTGCAATTATT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGACATTTTAACCATAGACTATTTTACAAACAAACTT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGAGATTTAAAAGTTAACAACATAAAAATGATAGATA
GTTTTATATTAACTAAGTGGTATGTAAAT	TGGTGAACAATAAAACAATCATCTAAAGACGAAGAAAA
GTTTTATATTAACTAAGTGGTATGTAAAT	ATAATCCAGAAGATGATACACTTCTTGAACAATATATTG
GTTTTATATTAACTAAGTGGTATGTAAAT	CTATCAATATATATTTTATAAGCATAAGTTTTACGCAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AACAACGTCATATATATCATCTTTAGTTGTAAGAGCA
GTTTTATATTAACTAAGTGGTATGTAAAT	AGTTATGTCAAATTATTAGAAACTAAAAACCTAGTTGG
GTTTTATATTAACTAAGTGGTATGTAAAT	AATATCTAAAAAAAACGACTTATATCCCATTTCTACA
GTTTTATATTAACTAAGTGGTATGTAAAT	AATTTAGAAAAGGACTATTAGGAAGCAAAGAAAAAAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC
GTTTTATATTAACTAAGTGGTATATAAAT

>NC_009089|7|7|1645194-1646018|CRISPRCasFinder
GTTTTATATTAACTAAGTGGTATGTAAAT	TAAAACCACTCAATTCTTAAAAGATACTGCAATTATT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGACATTTTAACCATAGACTATTTTACAAACAAACTT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGAGATTTAAAAGTTAACAACATAAAAATGATAGATA
GTTTTATATTAACTAAGTGGTATGTAAAT	TGGTGAACAATAAAACAATCATCTAAAGACGAAGAAAA
GTTTTATATTAACTAAGTGGTATGTAAAT	ATAATCCAGAAGATGATACACTTCTTGAACAATATATTG
GTTTTATATTAACTAAGTGGTATGTAAAT	CTATCAATATATATTTTATAAGCATAAGTTTTACGCAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AACAACGTCATATATATCATCTTTAGTTGTAAGAGCA
GTTTTATATTAACTAAGTGGTATGTAAAT	AGTTATGTCAAATTATTAGAAACTAAAAACCTAGTTGG
GTTTTATATTAACTAAGTGGTATGTAAAT	AATATCTAAAAAAAACGACTTATATCCCATTTCTACA
GTTTTATATTAACTAAGTGGTATGTAAAT	AATTTAGAAAAGGACTATTAGGAAGCAAAGAAAAAAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC
GTTTTATATTAACTAAGTGGTATATAAAT	AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA
ATTTTACATTAACTAAAATGTATAGAATA

>NC_009089|7|3|1645194-1646018|CRT
GTTTTATATTAACTAAGTGGTATGTAAAT	TAAAACCACTCAATTCTTAAAAGATACTGCAATTATT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGACATTTTAACCATAGACTATTTTACAAACAAACTT
GTTTTATATTAACTAAGTGGTATGTAAAT	GGAGATTTAAAAGTTAACAACATAAAAATGATAGATA
GTTTTATATTAACTAAGTGGTATGTAAAT	TGGTGAACAATAAAACAATCATCTAAAGACGAAGAAAA
GTTTTATATTAACTAAGTGGTATGTAAAT	ATAATCCAGAAGATGATACACTTCTTGAACAATATATTG
GTTTTATATTAACTAAGTGGTATGTAAAT	CTATCAATATATATTTTATAAGCATAAGTTTTACGCAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AACAACGTCATATATATCATCTTTAGTTGTAAGAGCA
GTTTTATATTAACTAAGTGGTATGTAAAT	AGTTATGTCAAATTATTAGAAACTAAAAACCTAGTTGG
GTTTTATATTAACTAAGTGGTATGTAAAT	AATATCTAAAAAAAACGACTTATATCCCATTTCTACA
GTTTTATATTAACTAAGTGGTATGTAAAT	AATTTAGAAAAGGACTATTAGGAAGCAAAGAAAAAAT
GTTTTATATTAACTAAGTGGTATGTAAAT	AAAGTAAATCCTAGAGCATAACCAATTTTCGTAGGC
GTTTTATATTAACTAAGTGGTATATAAAT	AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA
ATTTTACATTAACTAAAATGTATAGAATA

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861204.1\|1638032_1638977_+\|EamA-family-transporter	unknown	unknown	gnl\|CDD\|273359
NC_009089.1\|WP_009902497.1\|1646343_1648077_-\|diguanylate-cyclase	unknown	unknown	gnl\|CDD\|143635
NC_009089.1\|WP_003429358.1\|1641496_1642165_+\|diphthine--ammonia-ligase	unknown	unknown	gnl\|CDD\|238952
NC_009089.1\|WP_011861207.1\|1641001_1641430_+\|EamA-family-transporter	unknown	unknown	gnl\|CDD\|377396
NC_009089.1\|WP_009902485.1\|1636284_1637715_-\|sigma-54-interacting-transcriptional-regulator	unknown	unknown	gnl\|CDD\|226350
NC_009089.1\|WP_003429374.1\|1653590_1653767_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003429379.1\|1655796_1656162_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224647
NC_009089.1\|WP_003419819.1\|1635500_1636085_-\|zinc-dependent-phospholipase-C-family-protein	unknown	unknown	gnl\|CDD\|376406
NC_009089.1\|WP_021366524.1\|1657508_1658303_-\|delta-lactam-biosynthetic-de-N-acetylase	unknown	unknown	gnl\|CDD\|200572
NC_009089.1\|WP_003429371.1\|1652210_1653020_+\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133378
NC_009089.1\|WP_011861205.1\|1639247_1640183_-\|TIGR01212-family-radical-SAM-protein	unknown	unknown	gnl\|CDD\|224163
NC_009089.1\|WP_003438546.1\|1640301_1640895_-\|membrane-protein	unknown	unknown	gnl\|CDD\|225786
NC_009089.1\|WP_003429376.1\|1654271_1654946_-\|MgtC/SapB-family-protein	unknown	unknown	gnl\|CDD\|224204
NC_009089.1\|WP_011861208.1\|1649192_1651427_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_003438549.1\|1642282_1643638_-\|MATE-family-efflux-transporter	unknown	unknown	gnl\|CDD\|240548
NC_009089.1\|WP_009902496.1\|1644761_1644914_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003438593.1\|1656626_1657412_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|225928
NC_009089.1\|WP_009889222.1\|1648316_1649162_-\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635
NC_009089.1\|WP_011861209.1\|1653164_1653404_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003438534.1\|1634627_1635407_+\|Cof-type-HAD-IIB-family-hydrolase	unknown	unknown	gnl\|CDD\|369792

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861204.1\|1638032_1638977_+\|EamA-family-transporter	gnl\|CDD\|273359	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter. [Transport and binding proteins, Amino acids, peptides and amines].	1.95803e-26
NC_009089.1\|WP_009902497.1\|1646343_1648077_-\|diguanylate-cyclase	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	1.34022e-46
NC_009089.1\|WP_003429358.1\|1641496_1642165_+\|diphthine--ammonia-ligase	gnl\|CDD\|238952	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.	4.64591e-55
NC_009089.1\|WP_011861207.1\|1641001_1641430_+\|EamA-family-transporter	gnl\|CDD\|377396	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ. DMT_YdcZ is a family of putative inner membrane exporters from both Gram-positive and Gram-negative bacteria.	1.95488e-17
NC_009089.1\|WP_009902485.1\|1636284_1637715_-\|sigma-54-interacting-transcriptional-regulator	gnl\|CDD\|226350	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].	8.17105e-137
NC_009089.1\|WP_003429379.1\|1655796_1656162_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|224647	COG1733, COG1733, Predicted transcriptional regulators [Transcription].	4.48025e-25
NC_009089.1\|WP_003419819.1\|1635500_1636085_-\|zinc-dependent-phospholipase-C-family-protein	gnl\|CDD\|376406	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C.	9.21275e-20
NC_009089.1\|WP_021366524.1\|1657508_1658303_-\|delta-lactam-biosynthetic-de-N-acetylase	gnl\|CDD\|200572	cd10948, CE4_BsPdaA_like, Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs. The Bacillus subtilis genome contains six polysaccharide deacetylase gene homologs: pdaA, pdaB (previously known as ybaN), yheN, yjeA, yxkH and ylxY. This family is represented by Bacillus subtilis pdaA gene encoding polysaccharide deacetylase BsPdaA, which is a member of the carbohydrate esterase 4 (CE4) superfamily. BsPdaA deacetylates peptidoglycan N-acetylmuramic acid (MurNAc) residues to facilitate the formation of muramic delta-lactam, which is required for recognition of germination lytic enzymes. BsPdaA deficiency leads to the absence of muramic delta-lactam residues in the spore cortex. Like other CE4 esterases, BsPdaA consists of a single catalytic NodB homology domain that appears to adopt a deformed (beta/alpha)8 barrel fold with a putative substrate binding groove harboring the majority of the conserved residues. It utilizes a general acid/base catalytic mechanism involving a tetrahedral transition intermediate, where a water molecule functions as the nucleophile tightly associated to the zinc cofactor.	4.50866e-114
NC_009089.1\|WP_003429371.1\|1652210_1653020_+\|MerR-family-transcriptional-regulator	gnl\|CDD\|133378	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	4.54289e-25
NC_009089.1\|WP_011861205.1\|1639247_1640183_-\|TIGR01212-family-radical-SAM-protein	gnl\|CDD\|224163	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only].	1.47036e-179
NC_009089.1\|WP_003438546.1\|1640301_1640895_-\|membrane-protein	gnl\|CDD\|225786	COG3247, HdeD, Uncharacterized conserved protein [Function unknown].	0.00991138
NC_009089.1\|WP_003429376.1\|1654271_1654946_-\|MgtC/SapB-family-protein	gnl\|CDD\|224204	COG1285, SapB, Uncharacterized membrane protein [Function unknown].	1.38574e-53
NC_009089.1\|WP_011861208.1\|1649192_1651427_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	3.59554e-92
NC_009089.1\|WP_003438549.1\|1642282_1643638_-\|MATE-family-efflux-transporter	gnl\|CDD\|240548	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA. The integral membrane proteins from the MATE family are involved in exporting metabolites across the cell membrane and are responsible for multidrug resistance (MDR) in many bacteria and animals. This subfamily includes Streptococcus aureus MepA and Vibrio vulnificus VmrA and functions most likely as a multidrug efflux pump.	6.88958e-115
NC_009089.1\|WP_003438593.1\|1656626_1657412_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|225928	COG3393, COG3393, Predicted acetyltransferase [General function prediction only].	3.55693e-31
NC_009089.1\|WP_009889222.1\|1648316_1649162_-\|GGDEF-domain-containing-protein	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	1.16166e-29
NC_009089.1\|WP_003438534.1\|1634627_1635407_+\|Cof-type-HAD-IIB-family-hydrolase	gnl\|CDD\|369792	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase. This family contains haloacid dehalogenase-like hydrolase enzymes.	1.15163e-50

>NC_009089.1|WP_009902496.1|1644761_1644914_+|hypothetical-protein
MDNFLQGVLASLVASLIVYLNSKLFKKVKSHSGRSDFSFELKIKFKKNKH
>NC_009089.1|WP_003438549.1|1642282_1643638_-|MATE-family-efflux-transporter
MDTKISINENMSLGKRFFKYLAPSVVAMWVFSLYTMVDGIFVSKGVGELALAAVNISMPFINFIFAVSLLFSTGASTIIAIYLGKKDIKSANEVFSFNLVSIIILSIIILAITFFNLDRLALFLGATESTIGMVKDYLGIIIFFNGFFIVSYSLEVIIKTDGFPILATVGVIISALTNIILDYLFVIEFGWGVKGAGIATGLSQVFSTIFFLIHFLRKNSTLNFSKFRIDFKTLRKIVFIGFPDSTTELSCGIVVLLFNLSLTKYIGENALIYYSVINYINTLVLMTMMGITQGMQPLTSFYYGAGNIDNVKKLLKMGIKATIIASVAVFAICMAFSGPIVSLFIHPEETMLFNEGVRVFKIFSISFLLVGINVIISGFFVSVEKPSISTVISLGRGLVIVVLSLISMILIFGGQGIWMTTIVSEFICLILSLVFLKKNFSTLDSNLNKVA
>NC_009089.1|WP_003429358.1|1641496_1642165_+|diphthine--ammonia-ligase
MKEVLKLADEKFVMSFSGGKDSILALNRMLKKGYKPVALLTTISEEHGKSWTHNLEYNMLKQVSSNIGLPLLVAECGVEGYEESFERALIKAKNMGATICAYGDIDIESHRKWDTDRCEAVGMKVDLPLWQESREDLVYEFIDSGFCSVVTKVNLKHLGEEFLGKKLTRELVEKIKNAGADPCGEHGEYHTFVVDGPIFKKPVEYEVKGTLIKDGYGYLEIK
>NC_009089.1|WP_011861207.1|1641001_1641430_+|EamA-family-transporter
MTKLWAIIFALLAGGSTALEAFINGELGKSTTALVATFISLTVGAIFFLASIIVTGDLKCLVSINGFNYKLLLGGVFGGLIIYFTVKAIPNLGVSNTLILTLVSQVLVGFFIDSVILGQETMHLYKYIGVILLILGAFFIVN
>NC_009089.1|WP_003438546.1|1640301_1640895_-|membrane-protein
MNFCYNCSIDFGGDFMYTNFNIDFNNFNKKENAIKFMLMGVLLIILGLLCLTFKTLGIKLISWTFGIALLFFAYLNLKNINELKRYATKEEIKPSINIQWVLIIACILLFVFPQKIQSIFSLFLGFYLIFNQLVALVNSKNNPYSKFTTWNIVKILFGICLILSPLFLSRFIVSIMSFFIILFGLVLFFSGNTARKY
>NC_009089.1|WP_011861205.1|1639247_1640183_-|TIGR01212-family-radical-SAM-protein
MDKFKYAFDNKRYHTWNYYLRNTFGEKVFKVSINAGFTCPNIDGSLGYGGCTYCSKEGSGDFAGNPKDNLISQFYNIKEMMLKKWPHAKYIGYFQAYTNTYAPLEVLKEKYETILELEDVIGLSISTRPDCLPDDIVEYLSELNKRTNLWVELGLQTIHDSTSKIINRGHDYKTFVEGVEKLKSKNIKVVVHIINGLPGEDYNMMMETAKAVGKMGVDGIKIHLLHVIKDTPMEKMLQNGMLTLMEQDEYINLVCDQLEILPETMIIHRLTGDGKRDELVGPIWSLKKWEILNKIDDTLKARNSYQGCKFV
>NC_009089.1|WP_011861204.1|1638032_1638977_+|EamA-family-transporter
MGEKSKGYVFIAIAGLLWATLGLFGKFLMGNGLTSEQVAFTRLFFGFIVLGVYSSIRTPQILKINKKGIIYSVIIGIICQAMFNLCYFKAIDIAGVSIAAVLLYTSPLFLAIFSKICYKENITRSKLFSLILCFIGAIMAVTGGRLDFQGLNAFGLLLGVLSAIAYALMPTISKNALKEFSSSTILVYSFLFGAIFMIPSSRPWEILNYAKDLDVLSCMLMLGIVPAALAYIFYAAGISKGVELSVAGVVASVELVGSVIIGCTILGESFSLGKLFGVMLMLISAVVALNLSYDEIRIFYKSNKLKQIEKTESI
>NC_009089.1|WP_009902485.1|1636284_1637715_-|sigma-54-interacting-transcriptional-regulator
MNLDLEFYQKILEASHDEICVSDDKGIIIYCNKAFEENYGLKKEDILGKNVSFLEDSGYSTKSPIPIVLKTKTKFSLEQDTQTGKKLIITATPIFDENGHLEFTVENCRDITELNNIKNKLEDTKKQVKKYKSEVETLYRTALRIEDTVIMDGIVMRPIINTVNHVSKTDVSVLLLGESGTGKSSLARYIHHNSNRSNGPFITINCATISPQLLESELFGYTSGAFTGASTKGKVGLVELANGGTLFLDEIGDIPQNLQAKFLQLIQDRTFTPVGSLKNKKVDIRIISATNVDLVSKVKEKKFREDLYYRLNVIEIKLPPLRERRDNLVEIIKYYFNRYSSDFNLNKTISKEAMDAIANYRFPGNIRELQNIIQKILLTCTDNHITIDDLPNILTKNIHITNNGNKTHISQINKVIISDSKSTNYKNKNFDTLIKEYEKNIILDAYEKFGSSYKVAKHLEISQSKANRLIRKYTNT
>NC_009089.1|WP_003419819.1|1635500_1636085_-|zinc-dependent-phospholipase-C-family-protein
MLMNTHFIMAKSILDNIDENKTFFISEKNFIYGNIKPDAFSKYKLKKHYLDESFNMIVSKINYLCSLNIDSLSKYFSVSRLSQELGVICHFLCDFFCVAHSERWEFKHSLNKHVTYERELGAFAKDVDLSKIKCGTINSSFEKFFTKLYSDYKKKTDYMNDLKFSAYTCNSVINYILDSILSNTIKSYHIANCG
>NC_009089.1|WP_003438534.1|1634627_1635407_+|Cof-type-HAD-IIB-family-hydrolase
MIKHIFCDLDGTLYENGTITKEDIVAIEEIEKKGVQFNVATGRIFKQAHNIIKDSLDMNGYYVCENGSFIYDKDYNVIFKRTIDDNLVKKVIDRFESSDAQLYFKYKGDVIVGSDTTAFRHYSSDFIVDPDFEKRSSFDNLIGNIGVCSENLEELSRIELYLKSEFSEVLEIYFSGTYTLNIVPKSVSKRGSIEHVIKTLNVSPDEVATIGDSPNDICMLEGFKYSFAMSKAREDVKQSANYVVDSVKSAIDVIMEINS
>NC_009089.1|WP_009902497.1|1646343_1648077_-|diguanylate-cyclase
MSILLKKAPKLAKHIITSFYINRDINEVLKYLCENVTWIGPGEQEFLTSFNEIKNYFYAGQDEIPSCDINNDIFETVSEDENRCMVLGRYTVRTKENAQMILEVNQRCTFEIIEDRGKLLIKHMHISNPYGEMQLDEYFPTKIGTQSYDYLQRLLKEKTEVIEMITNNINGGLKGSNDDSTYSFFYVNEGLPKILGYTYDEFMEMSGGSAVGAVYPPDLPKALEDCERCFAKGPTYSSEYRIRKKDGTLMWVLDSGMKSLNSDGIVKINSIITDITQLKNIESELKLERERYRIALQNITDIMFEYDIENDTLIKYQRVEIDKKIELENFETKNYSKLLESGKIIHLDDIGKLLEVLHGNLRETIEIRQVNSLTKNEWRWIRVQCSVIYDSDHNPIKTIGVLKDITEDKSKLESLINQAQRDPLTQLYNQRVSQNLIEEYLCSSDSKNNDALLVIDIDDFKTVNDTFGHLEGNEVLVAVSKILLHNTHDKDIVARIGGDEFTIFIKSLTKDLIIKITNDILNDASKIKVKDNHKITLSIGIAFTDDSTKLYKDLFSKADKALYLSKADGKNCYSTYE
>NC_009089.1|WP_009889222.1|1648316_1649162_-|GGDEF-domain-containing-protein
MFKEIFLRTFPGFLIIRDSNYRIIFINDNLKNLIKSYMQDNPLGMTNIEIAKKLPDNIAKFFTDSHNIQLDWEKNYPYDKISNWILEFKKDTTSYWNVLEYKVDVDEKTYIITMANDITKLYEENKRNLHYSITDPLTGAYNRKYLNDRFDIFIGDYIVLIDLDNFKMINDYEGHNVGDKILCDFVSLLNKELINSTSIIRLGGDEFIVIFSSDVDKNYVYSQLEALRENFLKVFSKYKYLSFSYGVDTVKRNLKLTIVELDKKMYKNKEKNKKKFDKNDY
>NC_009089.1|WP_011861208.1|1649192_1651427_-|EAL-domain-containing-protein
MQNHNYIKMLNKKVEVLSKELDSRNFKLKTLNEIDFFSKIPNREFMYQYIDDCISKNIHIGIMLLNIDNFKLFNDIYGYLVGENLLITLTQNLLHFIPESKGIVAYLKGEGFLIVLPNVSNKELNNMGATIIESARELKIKLPNEKEIYSNVTFSIGSTIWNGEPNMTTLMLFNQVYSALKKAKSEGKNRYILFDFKDNSFYNKLENDKEFLSEISHVLQTKQIEVFYQPLYNIKNNTIVGCEALARWRHPIKGLLTPDKFIPLFEQFGLITELDLHLFEENCKNIRRWIDNNDVFVPICCNFSRLHFFNPNFPSMLKGITEKYSVSTSNFSIEITENILIENTNTIIQQLAELRSYGFSVSMDDFGSGYSSFGMLQNLPFDIIKIDRIFLSHNLNDFKNTTILYSIINIARALGMLTVCEGVETEQHVEFIKSINCDIAQGYYYAKPMECKEFEKLLSKENNSEKMFIKYSDIGKSLIEKIFDGFFIMQDMKKLRANVTEDIQWFDFYNKTEITSFPKVIEHFEKHIKGKKFSILYKSITPHNTESDSLLISGEAVLSDEASEHQKYSNFYFSANCIISENKLLLAKLHLDLIKTAGYINEFESYSIPKMTNTHLDESNILSQFYSMLPVGIIRYDLFGDMIITYMNEEMFDIIGYTKEQFFGEMGGNLRAIVHPDDLDFVYKKSLDMIDTNKIEPFLYRFIKRDGQIVTVMYTQCNLSAIDGRSIAQGMYVDVNKIKNLTKI
>NC_009089.1|WP_003429371.1|1652210_1653020_+|MerR-family-transcriptional-regulator
MKDYYKIGEISKIYGIGRDSLMYYEEIGILRPVRDINGYRMYNISDIWKLNLIKEFRSLNFPMKKIKEYLDDRSIESTKNILNEELDLIDKKIAEFISHKENIIKRLSSIESVIQNTKIDEIEVVYIEKRKALELNADIKRDEDFDFLIQKLQKEYEDRFNILGNNNIGSAFSTEAINKGIFNEFKSVFCFLESNEKVYNIVFDEGYYVTLNYTGSNSNNKMYMEKVFKFIEENNYKIIADPIEIYKIDIHETGIVEEFVTEIQVPITK
>NC_009089.1|WP_011861209.1|1653164_1653404_+|hypothetical-protein
MKCSNCGSVNIEKGILTTGGIYAETIGLKYRGDRKLDKVINKTFPVQSTIYSDLCLDCGEIVRTYIKDNIDRNWCKDKK
>NC_009089.1|WP_003429374.1|1653590_1653767_-|hypothetical-protein
MFRDEMDKCTHMLTAYISSLYDYCDFIDTQLDDFILEYGENVVESCLHQVMVLVSKYN
>NC_009089.1|WP_003429376.1|1654271_1654946_-|MgtC/SapB-family-protein
MNHHILIQFEYIARIITAGFCGALIGYERKNRLKEAGIRTHFIVALASALIIIVSKYGFNDIVGTPGIGLDPARVAAQVVSGIGFLGAGLIFIRNQSVSGLTTAAGIWATAGTGLAIGSGLYLVGIVSSIIIVIVQITLHRDRKWMKLPTAEQVSLKISNSTDSIEYIEGKFKKSNIEIINMNIKRLDGDWLEVVIYTKLPKGYKKTNLLKLFSDNPLIETLEI
>NC_009089.1|WP_003429379.1|1655796_1656162_-|helix-turn-helix-transcriptional-regulator
MKIRAEYTCPLEIVHDIIKGKWKTILIFELRQSNKTFSELQHNIYGINQKMLIQQLKELRDFGIIDKISSAGYPLHVEYFLTNRGKKMLKAVEIMQEIGIEYMLEHGQQEILDNKGICYNK
>NC_009089.1|WP_003438593.1|1656626_1657412_+|GNAT-family-N-acetyltransferase
MIVKIDNTLEKEFWQYVSHEESLNLFIIGYVENYGFSSQYQDIWSQVEDGNITSIILKNKSTLIIYSFKNNFNIGEMKNHIKDLDVESISGKKCVIDRLISKYKDFYEKLDNKFCVLKEIKEIDFSNMKEYKIENAQEKDIDEIGKLLNRSDYKVSKNYIEERKVHLKEGNVRAYFIRNDDTMISTVSTGMETSFLAMVVSVSTDKRYRGKGLASYMVYNLSKELLLEGKVPCLFYNNDVAGKIYHNIGYKEINEWTILFK
>NC_009089.1|WP_021366524.1|1657508_1658303_-|delta-lactam-biosynthetic-de-N-acetylase
MIGAFALILFGIASINFKSLDKTKTQISSPTLDTHEYDWYFNPREDGKQPSPIKEADFFKKYGAYYVGNPNEKVIYLSFDAGYESGNTPKLLDTLKKHNAKAQFFVVESYIKSNPELIKRMEKEGHLVCNHSKSHPSMAGITDFEKFKEEITSVEKAYKDVTGKEMPKYFRPPMGKFSEQSLKYTQDLGYKSIFWSFAYVDWYEKKQPTHEFAKNKIYSRTHPGAIVLLHPNSSTNTEILDEVLTHWEKEGYKLKTLDYLNNKK

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Crispr_ID: NC_009089_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_8

1756278-1756833

TypeV

I-A

Consensus_repeat	Method
GTTTTATATTAACTATATGGAATGTAAAT	PILER-CR
GTTTTATATTAACTATATGGAATGTAAAT	CRISPRCasFinder
GTTTTATATTAACTATATGGAATGTAAAT	CRT

8 spacers

The CRISPR arrays of NC_009089_8

>merge|NC_009089|8|1756278-1756833|PILER-CR,CRISPRCasFinder,CRT
GTTTTATATTAACTATATGGAATGTAAATTATCTATTATTGGTATATTAAATGATTCTAATAATTCGTTTTATATTAACTATATGGAATGTAAATATGTTCACATTGACAGCTCAAGATAAACATGGAATTGTTTTATATTAACTATATGGAATGTAAATTTAAATCGTTTGATTGGAAGTATAAATTATAATGACCGTTTTATATTAACTATATGGAATGTAAATGCTGAAAGTTTAAAAGTTTTAACTATAAATTCAGTTGGTTTTATATTAACTATATGGAATGTAAATTCTTTTTCTAATGCTTTTTTTACATATGGAGCTAACGTTTTATATTAACTATATGGAATGTAAATCCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAGGTTTTATATTAACTATATGGAATGTAAATAGGAGATAACTTCTATTAAAGATAACTTTGATGTGGTGTTTTATATTAACTATATGGAATGTAAATCTCAAAGTTGGACTAGCTTCATCTTTTAATTTTACAAGTGTTTTATATTAACTATATGGAATGTAAAT

>NC_009089|8|5|1756278-1756833|PILER-CR
GTTTTATATTAACTATATGGAATGTAAAT	TATCTATTATTGGTATATTAAATGATTCTAATAATTC
GTTTTATATTAACTATATGGAATGTAAAT	ATGTTCACATTGACAGCTCAAGATAAACATGGAATT
GTTTTATATTAACTATATGGAATGTAAAT	TTAAATCGTTTGATTGGAAGTATAAATTATAATGACC
GTTTTATATTAACTATATGGAATGTAAAT	GCTGAAAGTTTAAAAGTTTTAACTATAAATTCAGTTG
GTTTTATATTAACTATATGGAATGTAAAT	TCTTTTTCTAATGCTTTTTTTACATATGGAGCTAAC
GTTTTATATTAACTATATGGAATGTAAAT	CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG
GTTTTATATTAACTATATGGAATGTAAAT	AGGAGATAACTTCTATTAAAGATAACTTTGATGTGGT
GTTTTATATTAACTATATGGAATGTAAAT	CTCAAAGTTGGACTAGCTTCATCTTTTAATTTTACAAGT
GTTTTATATTAACTATATGGAATGTAAAT

>NC_009089|8|8|1756278-1756833|CRISPRCasFinder
GTTTTATATTAACTATATGGAATGTAAAT	TATCTATTATTGGTATATTAAATGATTCTAATAATTC
GTTTTATATTAACTATATGGAATGTAAAT	ATGTTCACATTGACAGCTCAAGATAAACATGGAATT
GTTTTATATTAACTATATGGAATGTAAAT	TTAAATCGTTTGATTGGAAGTATAAATTATAATGACC
GTTTTATATTAACTATATGGAATGTAAAT	GCTGAAAGTTTAAAAGTTTTAACTATAAATTCAGTTG
GTTTTATATTAACTATATGGAATGTAAAT	TCTTTTTCTAATGCTTTTTTTACATATGGAGCTAAC
GTTTTATATTAACTATATGGAATGTAAAT	CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG
GTTTTATATTAACTATATGGAATGTAAAT	AGGAGATAACTTCTATTAAAGATAACTTTGATGTGGT
GTTTTATATTAACTATATGGAATGTAAAT	CTCAAAGTTGGACTAGCTTCATCTTTTAATTTTACAAGT
GTTTTATATTAACTATATGGAATGTAAAT

>NC_009089|8|4|1756278-1756833|CRT
GTTTTATATTAACTATATGGAATGTAAAT	TATCTATTATTGGTATATTAAATGATTCTAATAATTC
GTTTTATATTAACTATATGGAATGTAAAT	ATGTTCACATTGACAGCTCAAGATAAACATGGAATT
GTTTTATATTAACTATATGGAATGTAAAT	TTAAATCGTTTGATTGGAAGTATAAATTATAATGACC
GTTTTATATTAACTATATGGAATGTAAAT	GCTGAAAGTTTAAAAGTTTTAACTATAAATTCAGTTG
GTTTTATATTAACTATATGGAATGTAAAT	TCTTTTTCTAATGCTTTTTTTACATATGGAGCTAAC
GTTTTATATTAACTATATGGAATGTAAAT	CCATCAGCCTTATCCTGTGCAAATAATAGTGCCAAG
GTTTTATATTAACTATATGGAATGTAAAT	AGGAGATAACTTCTATTAAAGATAACTTTGATGTGGT
GTTTTATATTAACTATATGGAATGTAAAT	CTCAAAGTTGGACTAGCTTCATCTTTTAATTTTACAAGT
GTTTTATATTAACTATATGGAATGTAAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_009896453.1\|1746149_1746719_+\|lipoprotein	unknown	unknown	unknown
NC_009089.1\|WP_003427501.1\|1761142_1761583_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|225064
NC_009089.1\|WP_009902545.1\|1753525_1755619_+\|GGDEF-and-EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_009902543.1\|1750280_1751129_-\|pantoate--beta-alanine-ligase	unknown	unknown	gnl\|CDD\|234741
NC_009089.1\|WP_011861239.1\|1745245_1746145_+\|4Fe-4S-binding-protein	unknown	unknown	gnl\|CDD\|274004
NC_009089.1\|WP_003439379.1\|1758442_1760563_-\|ferrous-iron-transport-protein-B	unknown	unknown	gnl\|CDD\|223447
NC_009089.1\|WP_011861240.1\|1746885_1747533_-\|lactate-utilization-protein	unknown	unknown	gnl\|CDD\|376839
NC_009089.1\|WP_009896478.1\|1764469_1765351_-\|polysaccharide-deacetylase	unknown	unknown	gnl\|CDD\|200569
NC_009089.1\|WP_003439365.1\|1749668_1749851_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003439382.1\|1761734_1762724_+\|DUF2232-domain-containing-protein	unknown	unknown	unknown
NC_009089.1\|WP_009889347.1\|1745085_1745235_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003439388.1\|1765736_1766681_+\|DMT-family-transporter	unknown	unknown	gnl\|CDD\|223769
NC_009089.1\|WP_009893097.1\|1757491_1758310_+\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133409
NC_009089.1\|WP_009889371.1\|1766903_1767449_+\|NADH-peroxidase	unknown	unknown	gnl\|CDD\|153105
NC_009089.1\|WP_071605615.1\|1751949_1752873_-\|DUF2520-domain-containing-protein	unknown	unknown	gnl\|CDD\|378484
NC_009089.1\|WP_032506863.1\|1757000_1757285_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003420037.1\|1760588_1760816_-\|ferrous-iron-transport-protein-A	unknown	unknown	gnl\|CDD\|377199
NC_009089.1\|WP_003439367.1\|1751147_1751975_-\|3-methyl-2-oxobutanoate-hydroxymethyltransferase	unknown	unknown	gnl\|CDD\|234723
NC_009089.1\|WP_003439363.1\|1747922_1748837_-\|DUF2935-domain-containing-protein	unknown	unknown	gnl\|CDD\|378573
NC_009089.1\|WP_009889364.1\|1763200_1764409_+\|tyrosine--tRNA-ligase	unknown	unknown	gnl\|CDD\|237360

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003427501.1\|1761142_1761583_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|225064	COG2153, ElaA, Predicted acyltransferase [General function prediction only].	2.14803e-35
NC_009089.1\|WP_009902545.1\|1753525_1755619_+\|GGDEF-and-EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	9.75765e-89
NC_009089.1\|WP_009902543.1\|1750280_1751129_-\|pantoate--beta-alanine-ligase	gnl\|CDD\|234741	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed.	4.56463e-164
NC_009089.1\|WP_009893097.1\|1757491_1758310_+\|MerR-family-transcriptional-regulator	gnl\|CDD\|133409	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.	3.3683e-41
NC_009089.1\|WP_003439379.1\|1758442_1760563_-\|ferrous-iron-transport-protein-B	gnl\|CDD\|223447	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism].	4.06427e-151
NC_009089.1\|WP_003439363.1\|1747922_1748837_-\|DUF2935-domain-containing-protein	gnl\|CDD\|378573	pfam11155, DUF2935, Domain of unknown function (DUF2935). This family of proteins with unknown function appears to be restricted to Firmicutes. The structure of this protein has been solved and each domain is composed of four alpha helices. A metal cluster composed of iron and magnesium lies between the two domains.	2.79953e-33
NC_009089.1\|WP_009896478.1\|1764469_1765351_-\|polysaccharide-deacetylase	gnl\|CDD\|200569	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins. This family is represented by a putative polysaccharide deacetylase PgdA from the oral pathogen Streptococcus mutans (SmPgdA) and Bacillus subtilis YheN (BsYheN), which are members of the carbohydrate esterase 4 (CE4) superfamily. SmPgdA is an extracellular metal-dependent polysaccharide deacetylase with a typical CE4 fold, with metal bound to a His-His-Asp triad. It possesses de-N-acetylase activity toward a hexamer of chitooligosaccharide N-acetylglucosamine, but not shorter chitooligosaccharides or a synthetic peptidoglycan tetrasaccharide. SmPgdA plays a role in tuning cell surface properties and in interactions with (salivary) agglutinin, an essential component of the innate immune system, most likely through deacetylation of an as-yet-unidentified polysaccharide. SmPgdA shows significant homology to the catalytic domains of peptidoglycan deacetylases from Streptococcus pneumoniae (SpPgdA) and Listeria monocytogenes (LmPgdA), both of which are involved in the bacterial defense mechanism against human mucosal lysozyme. The Bacillus subtilis genome contains six polysaccharide deacetylase gene homologs: pdaA, pdaB (previously known as ybaN), yheN, yjeA, yxkH and ylxY. The biological function of BsYheN is still unknown. This family also includes many uncharacterized polysaccharide deacetylases mainly found in bacteria.	3.30794e-75
NC_009089.1\|WP_009889371.1\|1766903_1767449_+\|NADH-peroxidase	gnl\|CDD\|153105	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.	1.43332e-53
NC_009089.1\|WP_003439388.1\|1765736_1766681_+\|DMT-family-transporter	gnl\|CDD\|223769	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only].	1.30316e-12
NC_009089.1\|WP_011861239.1\|1745245_1746145_+\|4Fe-4S-binding-protein	gnl\|CDD\|274004	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family. Most members of this family are the NapH protein, found next to NapG,in operons that encode the periplasmic nitrate reductase. Some species with this reductase lack NapC but accomplish electron transfer to NapAB in some other manner, likely to involve NapH, NapG, and/or some other protein. A few members of this protein are designated MauN and are found in methylamine utilization operons in species that appear to lack a periplasmic nitrate reductase.	3.668e-24
NC_009089.1\|WP_071605615.1\|1751949_1752873_-\|DUF2520-domain-containing-protein	gnl\|CDD\|378484	pfam10728, DUF2520, Domain of unknown function (DUF2520). This presumed domain is found C-terminal to a Rossmann-like domain suggesting that these proteins are oxidoreductases.	1.10772e-41
NC_009089.1\|WP_003420037.1\|1760588_1760816_-\|ferrous-iron-transport-protein-A	gnl\|CDD\|377199	pfam04023, FeoA, FeoA domain. This family includes FeoA a small protein, probably involved in Fe2+ transport. This presumed short domain is also found at the C-terminus of a variety of metal dependent transcriptional regulators. This suggests that this domain may be metal-binding. In most cases this is likely to be either iron or manganese.	1.57039e-13
NC_009089.1\|WP_003439367.1\|1751147_1751975_-\|3-methyl-2-oxobutanoate-hydroxymethyltransferase	gnl\|CDD\|234723	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed.	5.69992e-171
NC_009089.1\|WP_011861240.1\|1746885_1747533_-\|lactate-utilization-protein	gnl\|CDD\|376839	pfam02589, LUD_dom, LUD domain. This entry represents a domain found in lactate utilization proteins B (LutB) and C (LutC), as well as several uncharacterized proteins. LutB and LutC are encoded by th conserved LutABC operon in bacteria. They are involved in lactate utilization and is implicated in the oxidative conversion of L-lactate into pyruvate.	6.38785e-55
NC_009089.1\|WP_009889364.1\|1763200_1764409_+\|tyrosine--tRNA-ligase	gnl\|CDD\|237360	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional.	0

>NC_009089.1|WP_009902545.1|1753525_1755619_+|GGDEF-and-EAL-domain-containing-protein
MNKHNFEVILNQLQINIYVTNIHTNEIIFMNKKMKEEYNILDPEGKVCWQVLYPEKNSTCSFCKVLELLKNDKKGVLIKWYEKCNKLNRVFENYDSLITWQDGTVVHMHQSIDIANSTSLNKPIKINEFHEISNNKEEKGVFNFSRDNFDYNSTLLYDALIRGTDEYIYICNMKTGVFRYSPSQVELFDLPGEIVKNPLVYWKKIVHPEDWNRFYKSNTEIGKNQMDYHTVEFRAKNRSGEYIWLRCRGQLMRDEFGEPSIFAGIMTQLGKQNKIDSLTQLLNYHEFMSVFEDKISNPMIEKLCIVLLDIDDFKNVNEMYDRDFGDNIIKTLAQSIQSILPDNAELYKLDGDEMGILVDNVEENEILTLYNQIQNMIIHLQLWRKYGLNITISAGCVIYPKHGDTVKELYKCASYSLQYAKEHGKNRLVFFSQEILKNKMYSLEMMRDLKASINDDFRGFSLRFQPQVDTESHKIIGVEVLLRWTNDKCKAISPLEFIPILEENDMINIVGAWVLRMALRTFRKWIDYYPFFKVSVNVSAVQILEDTFIEDIVKIIDDENFPYQNLVLELTESHTVQNMSILQFKFKALQDLGIYIAMDDFGTGYSSLEVLKFSPIDIVKIDRVFVKDILKSKFDATFIHFIVAICHDVGIKVCLEGVETQEEYDLVKQIKPDYIQGYLFGKPQTATEIFDLLKLDN
>NC_009089.1|WP_071605615.1|1751949_1752873_-|DUF2520-domain-containing-protein
MGSGKVGTSLANYFLSKGYCVSGFYGRNQLSLLESTNLTKTKIYSNLKDIIYENDILFITTSDDSIEIIDKKLSKFNLKHKYICHTSGSLKSSILFCSKKAGALIYSIHPIFAFSNKNTNIKKMKDICFSIEGDNEQDDLVIQNFIDDLGNQFFIRDKDTSSTYHLANVLVSNLVLSLLDIGVSYFIKLGLSEEESLKAISPLVKKNIENILDNGFTKALTGPVSRGDITPIRKHLSVLDKKDEDIYKILSLNLLKIIALGNDNSLKGIKNITIENAIENLISKSEKYKEIYKLLGGKNDEKYHTDF
>NC_009089.1|WP_003439367.1|1751147_1751975_-|3-methyl-2-oxobutanoate-hydroxymethyltransferase
MKNTIQTFKNAKYEGKKLSMLTAYDYSIAKIMDECDINGILIGDSLGMVIKGEENTLSVTIDEIIYHTKAVKNGVKNALIVSDMPFLSYHVSIEDAVKNAGRLIKEGGAHAVKLEGGSNVIKQIESIVNAQIPVMGHLGLTPQSVNSFGGFKVQGNTSETARQLIEDAKLIEKAGAFSIVLEGVPTKIAEMVTNSISIPTIGIGAGINCDGQILVYQDMLGMFGDFVPKFVKQYANIGDIMKDSIKNYILEVNTGAFPQEKHSFSINESELEKLY
>NC_009089.1|WP_009902543.1|1750280_1751129_-|pantoate--beta-alanine-ligase
MLVKEIKLLRNIIKDWRKHGYSIGLVTTMGFLHEGHQSLIKKAVKENDKVVVSVFVNPTQFGPNEDFNSYPRDIDKDFKYCMDSGATVVFNPSPEEMYLKGNCTTINVSGLTDFLCGAKRPVHFGGVCLVVSKFLNIVTPDKAYFGEKDAQQLAVIKRMVKDLNIDTEIIGCPIIRENDGLAKSSRNTYLSEEERKSALILNKSLSLAKEELVKGNLNPENIKELITAKINSEHLAKIDYVEIVDSETLQPVKQIEHSILVAIAVFIGKTRLIDNFTFELNI
>NC_009089.1|WP_003439365.1|1749668_1749851_-|hypothetical-protein
MFKDKIDECVHIMTAYIASLKEYYSFIETQIGDFIKKYGEDVVELCLHRVMILLCECGLA
>NC_009089.1|WP_003439363.1|1747922_1748837_-|DUF2935-domain-containing-protein
MIDNQKYVILSLELHLFFSRIMKEHALFLEAGFTNKNYNLAMEADHYKKQFEDLLSYTVSASNGIIRPDILYSEELVTTLTSVAEQKTEEFTGIEINKNITTRELNLQSGVNPQVGQDLVNYVAQLNSDAIRLLDGLINFKERVLDGVLSCTIFTSNYPLLLEHIIHEANLYRSYVVDLENKIDIESKNAKEIELFWDHIMMEHALFMRGLLDPSEGELINTSNDFAIKFNELIEKTNEMTDSNIKNITEETLNETVEFKDFKEAGASGIEQCKIKSIILPLLADHVLREANHYIRILESYKNM
>NC_009089.1|WP_011861240.1|1746885_1747533_-|lactate-utilization-protein
MIRQTPLEKRYDKLGPHIVTALKKRYFDAYYCKTRNEALQQILDLIPQNHVVSWGGSETLKEMGVQTAVREKGFKVIDRDLAKTPEERTEIMRQALLCDTFLMSSNAISEDGQLFNIDGNGNRVAAMIFGPKNVIVVAGMNKIVKNIDDAIQRTRTVASPAVVQRFQDVNTPCYINGSCIDCTSPESICAYMVTTRISRPAKKIKVILVGENLGL
>NC_009089.1|WP_009896453.1|1746149_1746719_+|lipoprotein
MKKFIICIIMFAISVLVLAGCTNDNKIKNEVDSMFNSIKTQDADTVDKYFPKSGLGNLIYEDKEGFKMYSKNMTWEISDIKNNKDKVTVDLKINNTDMVSILKKNPPKLGEMMPNPTMKDIDSAKKKEFNITLELVKSGDNYVCKVNQESAMKLLNVITGGGIDYLADYNKDYYKQLDEEQKNYENKNS
>NC_009089.1|WP_011861239.1|1745245_1746145_+|4Fe-4S-binding-protein
MKLLSKVNNNIRLITQVAFTALTNGYVNGFLEGTIYGGESKKLCVPGLNCYSCPGALGACPIGSLQAVLSSREYKFSFYVVGFLMAFGAFFGRFVCGWLCPFGLVQDLLHKVPFPVKIKKVYGDKYLKYLKYIVLIMFVIILPVAIVNVAGGGNPWFCKWICPSGTLLGGIPLILGNENLRESIGFLFSWKLSILLLILLMSIITYRPFCKYICPLGAIHGFFNPISIYRFKIDKDKCTNCTACQTKCKLDIPIYKDVNSPDCIRCGECIKVCPQNAITTTFSKDKKENNICAKKYRGI
>NC_009089.1|WP_009889347.1|1745085_1745235_+|hypothetical-protein
MSNFIKDNKKGISIIAISIIFIALGTYRGETNTVLTKAIMICLECIGIG
>NC_009089.1|WP_032506863.1|1757000_1757285_-|hypothetical-protein
MFVRVKIVIGATIRYLIKHKVNYCNKKSLDKLELKYGNIDREKAVKLEIFYQYLIELEYIEMSLLIRRLDTAITSLALVSIITIASYYLIRKNV
>NC_009089.1|WP_009893097.1|1757491_1758310_+|MerR-family-transcriptional-regulator
MEKQYFTTGEFAKLCGISKQTLIFYDKIGIFSPEYKDKNNYRYYSVYQYDTLDILQSLREIGMSLEEIKEYIQNRTPQLCVKMLKEEEKKIREKIKKLRKISSKMQNRINITVEGISKMNSEEIYISKKFEEYLVLSSDLSNMSNSDFMMELIDFTNYCKSKNLYQGYELGVIVSNENIKNGDYLSISSFYLKIDKKIKDKKLYVKPEGMYACIKHIGKYEDSYKSYEKLKKYIYENEYKIIGNSYEESILDFFCESNEDNYMTEISIQVSR
>NC_009089.1|WP_003439379.1|1758442_1760563_-|ferrous-iron-transport-protein-B
MGLTHNSTKMSSLKDMFDIDNKEDQFVIALAGNPNTGKSTVFNHLTGLRQHTGNWPGKTVATARGNFKYKNTEYALIDLPGTYSLFALSQEEIVARDFICFGNPDAVIVVCDATCLERNLNLVFQVMELTDKVILCINLIDEARKKGITIDKKLLEDSLGIPVILTAARNGSGMDELLDTLNDVSFDKYKLNNKPVRYNENIENVVKSIQPELDNIIPGINSRWLGLRLIDGDESIFESMSNYIDKDSIDAINEVKKKIPDNINKQKIRDEFTKINYDYAKKLSDECCSNVAKKSTDREEKVDKILTSKIFGLPIMLLLLGTILWITIEGANYPSTLLSNLLLGFEPSISGILNSINCPSWLNDMLVLGLYRTLAWVISVMLPPMAIFFPLFTLLEDFGYLPRVAFNLDHLFKKACAHGKQCLTMCMGFGCNAAGVIGCRIIDSPRERLIAILTNNFVPCNGRFPTLIAISTIFFSSVITNSFVSSVATALCITLLIILGVIITLLVSYTLSKTLLKGVPSTFTLELPPYRVPQIGRTLYTSIIDRTIFVLGRAVMVAIPAGVITWIFANIYIGDLSILSHVANFLDPLAKLIGLDGFILLAFILGFPANEIVVPILLMAYLATGSMIELDSFSALGQVLREHGWTYLTALNVMLFSLLHWPCATTLLTIKKETGSLKWTALGFLMPTILAFVVCFLTTTVYNLFI
>NC_009089.1|WP_003420037.1|1760588_1760816_-|ferrous-iron-transport-protein-A
MKNLNDIQVKKTVKVEDILSSGNLRERMLALGLTRGAVIDVVRKGPKNNLTVYKIRGSKIALRQEESSLILVSDI
>NC_009089.1|WP_003427501.1|1761142_1761583_-|GNAT-family-N-acetyltransferase
MFKIKHFNDLSLDEFYEIAKSRYEVFACEQKIFSLNDYDDIDKSSYHIFLKENGLICAYARIIPKEYSSYNDVSIGRVLVLSSHRRKGLAKQMMDCAIDFIKVNLHENNITLSAQTYIKNLYLSCGFKEISEVYDEAGIEHIKMRL
>NC_009089.1|WP_003439382.1|1761734_1762724_+|DUF2232-domain-containing-protein
MIYGGSVLNTTKKLTEAALLSSLFIVVTIIAVSTGFGYAIYLDFIVPVFFCIICLKCDLKYTILSGITSLLIISLVLGNLGTAIWASQSVLLGIMCGYLINKPTMVMDDLVYGSVFGVIVMVFIDIYASTLIGYSFMKEFQGYSKWIYFNGYTNFIYYLMIALFPFGMVFCIYLLSLILGNKLHILDSNSLKKFLIFKNFRNLNQFLCCSKKAFYICVSYLAIFEVLKLLNVKVDSVYLKTIFISITYISVYFIIRDSCMSLQNFIIAKFRKLLYARILFLIIILLLFFIFDVTVIGLIIINAFLNKKINIRLSQSNIVNKQINLLIEK
>NC_009089.1|WP_009889364.1|1763200_1764409_+|tyrosine--tRNA-ligase
MKSIDEQMRIIMKGVDDLIDEKELREKLIKSEKEGKPMIVKLGLDPSAPDIHLGHTVVLRKMKQLQDLGHQIVIIIGDFTGKIGDPTGKSKARKALTTEQVLANAKTYEEQIFKVLDKEKTIVRFNSEWLAKLNFEDVIKLAATITVARMLEREDFKKRYEGQMPISVHEFFYPLMQAYDSIALEADIELGGTDQRFNLLMGRSLQREFGMESQIVIMMPLIEGLDGKEKMSKSLGNYIGIDEEAGIMYQKSMEIPDELIIKYYNLVTDVHPDEVNKIESQLKEGSVNPRDIKMNLAREIVTLYHGEESAKEAEERFKSVFQKGQIPEDIQTIQVKEDGFDLIEVLVSNEIVKSKSEVRRLASQGGVKVNGEKVEDLSTIVKESELVVQIGKKKFVKIELVK
>NC_009089.1|WP_009896478.1|1764469_1765351_-|polysaccharide-deacetylase
MVKKRKKKTVTLTILVVIVIGIFSMAWADMSRKKEMKETQERLKAERLEKERIEKEKNEPIIGAKKEAVKEYGYDAKIVWDKLNKYDYSNNGEKIVFLTFDDGPSTTNTPQVLDILKRHGVRGTFFIKGDSLERKGANEILKRTFDEGNAIAHHSYTHDYKKLYPNRSLNLDTFVNELNKTDEAMKKVLGKNFSSNVVRCPGGYMSWKNMEPLGNYLKEKNMASIDWNALNADAEGKKKNAQELFEHAKKSSEGKEMVVLLMHDTYGKQETVNALDQIITYFKDNGYQFKILI
>NC_009089.1|WP_003439388.1|1765736_1766681_+|DMT-family-transporter
MQKNKKEGALLKKYFGEIGLIFIAIIWGSGFVATQFALDGGLTPLQIITLRFFLAAIIMNLLFFKQIRANMGKKLLKAGGILGIFLFLAFTVQTIGLMYTTPSKNAFITAANVVIVPFIGFILYRRKLDKIGIISSLVALIGIGILSLEADFSINFGDFLTLICSFGFAFHIFFTSEFAKDNNPMALTAIQFTVAFLMSVVVQTFAGQLKMEAELSGYMGTMYLAVFSTTIGFLFQTICQKRVDGTRTAIILSTEAVFGTIFSIIILKELITAKLVIGSILIFVAIITAETKLSFLKSKKVKLKDSEESSLESI
>NC_009089.1|WP_009889371.1|1766903_1767449_+|NADH-peroxidase
MKKFVCTVCGYIHEGDAAPAQCPVCKVGADKFEEMKGEMVWADEHRIGVAQGVDAEIIEGLRANFTGECTEVGMYLAMSRQADREGYPEVAEAYKRIAFEEAEHAAKFAELLGEVVVADTKENLRVRVDAEYGATDGKLKLAKRAKELGLDAIHDTVHEMCKDEARHGKAFLGLLNRHFGK

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Crispr_ID: NC_009089_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_9

1935482-1936495

TypeV

I-A

Consensus_repeat	Method
GTTTTATATTAACTATGTGGTATGTAAAT	PILER-CR
GTTTTATATTAACTATGTGGTATGTAAAT	CRISPRCasFinder
GTTTTATATTAACTATGTGGTATGTAAAT	CRT

15 spacers

cas14j

The CRISPR arrays of NC_009089_9

>merge|NC_009089|9|1935482-1936495|PILER-CR,CRISPRCasFinder,CRT
GTTTTATATTAACTATGTGGTATGTAAATCTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAGGTTTTATATTAACTATGTGGTATGTAAATTAATCTGACACATACAAAGTTGAACCTAGTGGTACGGGTTTTATATTAACTATGTGGTATGTAAATAAAAGCGTTCTTAAATCGTTACTTAACTCTTGCAAATGTTTTATATTAACTATGTGGTATGTAAATTGGTATATCATACTCGTGCATTGCCTGCTCCACATTGTTTTATATTAACTATGTGGTATGTAAATATACAACCATATATTTACCAATTATGTACTTATGAAGGTTTTATATTAACTATGTGGTATGTAAATTTTTTTAACTTTTCAGTTCTCACAGGCGTTTCATCTGTTTTATATTAACTATGTGGTATGTAAATTTCATATTCCAAGCGTTTTGCTTACACTTAATAGAAGTTTTATATTAACTATGTGGTATGTAAATAAAATTAAATTTCATGCTCTTAGACATACATATGCAACGTTTTATATTAACTATGTGGTATGTAAATTAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTTGTTTTATATTAACTATGTGGTATGTAAATTTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTAGTTTTATATTAACTATGTGGTATGTAAATTGAACTTTAATCGGTTTTATACAACAATATAACGCGTTTTATATTAACTATGTGGTATGTAAATTCACACATGAGCAATATCGAAACAGGCAAATCTACAGGTTTTATATTAACTATGTGGTATGTAAATTTCGTAAAATAACAATTATCTGGAATATGAGAAGTTGTTTTATATTAACTATGTGGTATGTAAATCACTCTTAAGTTGTGACCTATCTGATATATGATTAAAGTTTTATATTAACTATGTGGTATGTAAATTCAATATCTATATTAAGTTTATTTTTAAAAACATCTTGTTTTATATTAACTACGTGGTATGTAAAT

>NC_009089|9|6|1935482-1936495|PILER-CR
GTTTTATATTAACTATGTGGTATGTAAAT	CTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TAATCTGACACATACAAAGTTGAACCTAGTGGTACGG
GTTTTATATTAACTATGTGGTATGTAAAT	AAAAGCGTTCTTAAATCGTTACTTAACTCTTGCAAAT
GTTTTATATTAACTATGTGGTATGTAAAT	TGGTATATCATACTCGTGCATTGCCTGCTCCACATT
GTTTTATATTAACTATGTGGTATGTAAAT	ATACAACCATATATTTACCAATTATGTACTTATGAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTTTTTAACTTTTCAGTTCTCACAGGCGTTTCATCT
GTTTTATATTAACTATGTGGTATGTAAAT	TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA
GTTTTATATTAACTATGTGGTATGTAAAT	AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC
GTTTTATATTAACTATGTGGTATGTAAAT	TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT
GTTTTATATTAACTATGTGGTATGTAAAT	TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA
GTTTTATATTAACTATGTGGTATGTAAAT	TGAACTTTAATCGGTTTTATACAACAATATAACGC
GTTTTATATTAACTATGTGGTATGTAAAT	TCACACATGAGCAATATCGAAACAGGCAAATCTACAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT
GTTTTATATTAACTATGTGGTATGTAAAT	CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA
GTTTTATATTAACTATGTGGTATGTAAAT	TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT
GTTTTATATTAACTACGTGGTATGTAAAT

>NC_009089|9|9|1935482-1936495|CRISPRCasFinder
GTTTTATATTAACTATGTGGTATGTAAAT	CTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TAATCTGACACATACAAAGTTGAACCTAGTGGTACGG
GTTTTATATTAACTATGTGGTATGTAAAT	AAAAGCGTTCTTAAATCGTTACTTAACTCTTGCAAAT
GTTTTATATTAACTATGTGGTATGTAAAT	TGGTATATCATACTCGTGCATTGCCTGCTCCACATT
GTTTTATATTAACTATGTGGTATGTAAAT	ATACAACCATATATTTACCAATTATGTACTTATGAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTTTTTAACTTTTCAGTTCTCACAGGCGTTTCATCT
GTTTTATATTAACTATGTGGTATGTAAAT	TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA
GTTTTATATTAACTATGTGGTATGTAAAT	AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC
GTTTTATATTAACTATGTGGTATGTAAAT	TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT
GTTTTATATTAACTATGTGGTATGTAAAT	TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA
GTTTTATATTAACTATGTGGTATGTAAAT	TGAACTTTAATCGGTTTTATACAACAATATAACGC
GTTTTATATTAACTATGTGGTATGTAAAT	TCACACATGAGCAATATCGAAACAGGCAAATCTACAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT
GTTTTATATTAACTATGTGGTATGTAAAT	CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA
GTTTTATATTAACTATGTGGTATGTAAAT	TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT
GTTTTATATTAACTACGTGGTATGTAAAT

>NC_009089|9|5|1935482-1936495|CRT
GTTTTATATTAACTATGTGGTATGTAAAT	CTAGAATTAGAACTCATTATTAAAACCATTCTTGCAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TAATCTGACACATACAAAGTTGAACCTAGTGGTACGG
GTTTTATATTAACTATGTGGTATGTAAAT	AAAAGCGTTCTTAAATCGTTACTTAACTCTTGCAAAT
GTTTTATATTAACTATGTGGTATGTAAAT	TGGTATATCATACTCGTGCATTGCCTGCTCCACATT
GTTTTATATTAACTATGTGGTATGTAAAT	ATACAACCATATATTTACCAATTATGTACTTATGAAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTTTTTAACTTTTCAGTTCTCACAGGCGTTTCATCT
GTTTTATATTAACTATGTGGTATGTAAAT	TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA
GTTTTATATTAACTATGTGGTATGTAAAT	AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC
GTTTTATATTAACTATGTGGTATGTAAAT	TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT
GTTTTATATTAACTATGTGGTATGTAAAT	TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA
GTTTTATATTAACTATGTGGTATGTAAAT	TGAACTTTAATCGGTTTTATACAACAATATAACGC
GTTTTATATTAACTATGTGGTATGTAAAT	TCACACATGAGCAATATCGAAACAGGCAAATCTACAG
GTTTTATATTAACTATGTGGTATGTAAAT	TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT
GTTTTATATTAACTATGTGGTATGTAAAT	CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA
GTTTTATATTAACTATGTGGTATGTAAAT	TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT
GTTTTATATTAACTACGTGGTATGTAAAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861286.1\|1921420_1921936_+\|HXXEE-domain-containing-protein	unknown	unknown	gnl\|CDD\|379370
NC_009089.1\|WP_009889552.1\|1919165_1920896_+\|Na+/H+-antiporter-NhaC-family-protein	unknown	unknown	gnl\|CDD\|224671
NC_009089.1\|WP_011861296.1\|1945297_1946185_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213231
NC_009089.1\|WP_011861290.1\|1930874_1931993_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	cas14j	-	gnl\|CDD\|223747
NC_009089.1\|WP_011861287.1\|1922741_1925216_+\|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPA	unknown	unknown	gnl\|CDD\|234769
NC_009089.1\|WP_011861293.1\|1939728_1941573_+\|glycerophosphoryl-diester-phosphodiesterase	unknown	unknown	gnl\|CDD\|176521
NC_009089.1\|WP_004454491.1\|1947075_1947801_+\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_009089.1\|WP_004454500.1\|1937729_1938281_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|380339
NC_009089.1\|WP_011861288.1\|1925215_1926673_+\|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPB	unknown	unknown	gnl\|CDD\|235292
NC_009089.1\|WP_162835944.1\|1938465_1939434_+\|pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|107204
NC_009089.1\|WP_011861285.1\|1917695_1918682_-\|lipoate--protein-ligase	unknown	unknown	gnl\|CDD\|161920
NC_009089.1\|WP_009889555.1\|1932168_1932924_+\|DUF1835-domain-containing-protein	unknown	unknown	gnl\|CDD\|378848
NC_009089.1\|WP_011861289.1\|1927095_1929453_+\|HAD-IC-family-P-type-ATPase	unknown	unknown	gnl\|CDD\|319795
NC_009089.1\|WP_011861295.1\|1944261_1945284_+\|membrane-protein	unknown	unknown	unknown
NC_009089.1\|WP_004454504.1\|1929538_1929856_-\|pyrimidine/purine-nucleoside-phosphorylase	unknown	unknown	gnl\|CDD\|377724
NC_009089.1\|WP_018112776.1\|1936903_1937191_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009896806.1\|1933563_1934835_-\|amidohydrolase-family-protein	unknown	unknown	gnl\|CDD\|238628
NC_009089.1\|WP_011861294.1\|1941877_1942408_+\|sugar-O-acetyltransferase	unknown	unknown	gnl\|CDD\|100047
NC_009089.1\|WP_009889562.1\|1943510_1943687_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009896816.1\|1946190_1946964_+\|ABC-transporter-permease	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861286.1\|1921420_1921936_+\|HXXEE-domain-containing-protein	gnl\|CDD\|379370	pfam13787, HXXEE, Protein of unknown function with HXXEE motif. This domain contains an HXXEE motif, another conserved histidine and a YXPG motif. Its function is unknown.	1.60104e-21
NC_009089.1\|WP_009889552.1\|1919165_1920896_+\|Na+/H+-antiporter-NhaC-family-protein	gnl\|CDD\|224671	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion].	2.00354e-58
NC_009089.1\|WP_011861296.1\|1945297_1946185_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213231	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.	4.93552e-106
NC_009089.1\|WP_011861290.1\|1930874_1931993_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	2.52951e-55
NC_009089.1\|WP_011861287.1\|1922741_1925216_+\|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPA	gnl\|CDD\|234769	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA.	0
NC_009089.1\|WP_011861293.1\|1939728_1941573_+\|glycerophosphoryl-diester-phosphodiesterase	gnl\|CDD\|176521	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial glycerophosphodiester phosphodiesterases. In addition to a C-terminal GDPD domain, most members in this family have an N-terminus that functions as a membrane anchor.	1.82628e-94
NC_009089.1\|WP_004454491.1\|1947075_1947801_+\|response-regulator-transcription-factor	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	9.00382e-81
NC_009089.1\|WP_004454500.1\|1937729_1938281_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|380339	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain. This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.	4.10679e-17
NC_009089.1\|WP_011861288.1\|1925215_1926673_+\|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPB	gnl\|CDD\|235292	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB.	0
NC_009089.1\|WP_162835944.1\|1938465_1939434_+\|pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|107204	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine. Deficiency of CBS leads to homocystinuria, an inherited disease of sulfur metabolism characterized by increased levels of the toxic metabolite homocysteine. Cysteine synthase on the other hand catalyzes the last step of cysteine biosynthesis. This subgroup also includes an O-Phosphoserine sulfhydrylase found in hyperthermophilic archaea which produces L-cysteine from sulfide and the more thermostable O-phospho-L-serine.	3.44569e-108
NC_009089.1\|WP_011861285.1\|1917695_1918682_-\|lipoate--protein-ligase	gnl\|CDD\|161920	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase. One member of this group of proteins is bovine lipoyltransferase, which transfers the lipoyl group from lipoyl-AMP to the specific Lys of lipoate-dependent enzymes. However, it does not first activate lipoic acid with ATP to create lipoyl-AMP and pyrophosphate. Another member of this group, lipoate-protein ligase A from E. coli, catalyzes both the activation and the transfer of lipoate. Homology between the two is full-length, except for the bovine mitochondrial targeting signal, but is strongest toward the N-terminus. [Protein fate, Protein modification and repair].	3.48242e-94
NC_009089.1\|WP_009889555.1\|1932168_1932924_+\|DUF1835-domain-containing-protein	gnl\|CDD\|378848	pfam12395, DUF3658, Protein of unknown function. This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with pfam08874. There are two completely conserved residues (D and R) that may be functionally important.	1.79279e-29
NC_009089.1\|WP_011861289.1\|1927095_1929453_+\|HAD-IC-family-P-type-ATPase	gnl\|CDD\|319795	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7. This subfamily contains P-type ATPase transporters of unknown function, similar to Streptococcus pneumoniae Exp7. The P-type ATPases, are a large family of integral membrane transporters that are of critical importance in all kingdoms of life. They generate and maintain (electro-) chemical gradients across cellular membranes, by translocating cations, heavy metals and lipids. They are distinguished from other main classes of transport ATPases (F- , V- , and ABC- type) by the formation of a phosphorylated (P-) intermediate state in the catalytic cycle. A general characteristic of P-type ATPases is a bundle of transmembrane helices which make up the transport path, and three domains on the cytoplasmic side of the membrane. Members include pumps that transport various light metal ions, such as H(+), Na(+), K(+), Ca(2+), and Mg(2+), pumps that transport indispensable trace elements, such as Zn(2+) and Cu(2+), pumps that remove toxic heavy metal ions, such as Cd(2+), and pumps such as aminophospholipid translocases which transport phosphatidylserine and phosphatidylethanolamine.	0
NC_009089.1\|WP_004454504.1\|1929538_1929856_-\|pyrimidine/purine-nucleoside-phosphorylase	gnl\|CDD\|377724	pfam06865, DUF1255, Protein of unknown function (DUF1255). This family consists of several conserved hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.	2.92347e-53
NC_009089.1\|WP_009896806.1\|1933563_1934835_-\|amidohydrolase-family-protein	gnl\|CDD\|238628	cd01303, GDEase, Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and therefore can play a role in the regulation of cellular GTP and the guanylate nucleotide pool.	4.70771e-169
NC_009089.1\|WP_011861294.1\|1941877_1942408_+\|sugar-O-acetyltransferase	gnl\|CDD\|100047	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6 position of the nonreducing end glucosyl moiety. GAT specifically acetylates galactopyranosides. Furthermore, MAT shows higher affinity toward artificial substrates containing an alkyl or hydrophobic chain as well as a glucosyl unit. Active MAT and GAT are homotrimers, with each subunit consisting of an N-terminal alpha-helical region and a C-terminal left-handed parallel alpha-helix (LbH) subdomain with 6 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).	9.20602e-74

>NC_009089.1|WP_009896806.1|1933563_1934835_-|amidohydrolase-family-protein
MLKVLKGNIIFTKTSETFTVFENSYIILEKGKVKGIFKEIPKEYKNLKVVDYTDKLIIPGMNDLHAHASQFKNLGMAMDKELLPWLETYTFPEESNYKDIEYATKMYKKFVKELWKSGTTRIAVFATVHKEASMKLMDIFKEVGLGAYVGKVNMNMNCPDTLLENTQDSITDTEEIINKYSDTDSIVKPIITPRFIPSCTSELLKGLGDLCLKYNIPIQSHLSENYDEIEWVRSLEPESKFYGDAYNRYNLFGQTPTLMAHCVHCSQDEIDLMRENNVMAVHCPASNFNVGSGAMPIRKLIDNNIRLALGSDISGGHTLSIFKAMVSAIQLSKLYWVNSGKKYNFLSLSEAFYIATKSGGSFFGKVGSFEEGYDFDALIIDDSNLNHDNYSILERLERFIYVGDDRNIIHRYVCGKLIEEPNI
>NC_009089.1|WP_009889555.1|1932168_1932924_+|DUF1835-domain-containing-protein
MAHICFEDICYLLLKEAMKLKLIPHNKIVLFEDDLSIGNIFDVNNYELRENIFKIRNVFENNPKLLFKPDLLEDRKLSKCRNIIIWCANNPKDLCGVYYVVSKFQDKNIKIALVDEKKTEDALIRYSFTSEMSPEDFPFFLDKTLEIGFNEKLEFKNKWDVLVKENSIFRALVGNEIKSVEETYFDKYILRNISDKWQPLIEVVANCMFEDEMRVKDWFILWRLEKMASLKIVKIKGSKGDFYSDKEIRKV
>NC_009089.1|WP_011861290.1|1930874_1931993_+|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MVVVEKAYKFRMYPNKKQQELINKTFGCCRFVYNKYLAKRIDVYKNNKETFTYKQCSSDLTNLKKELKWLKEPDKFSLQNALKDLDNAYKKFFKEKTGFPKFKSKKINRFSYKTNFTNGNIMYCGQHIKLPKLGMVKIRDKQVPQGRILNATISKEPSGRYYVSLCCTDVDIEAFENTNNHIGLDLGIKEFCISSCGEFIENPKYLKKSLNKLAKLQRELSRKTIGSLNRNKARLKVARLQEHIANQRKDFLQKLSTKLIKENDIICIEDLQVKNMIKNHKLSRSISDVSWSEFIRQLEYKANWHGRQIVKVGKFFASSQICNKCGYKNEEVKNLNIREWICPSCNETHDRDINASINILKEGLRLITIQNK
>NC_009089.1|WP_004454504.1|1929538_1929856_-|pyrimidine/purine-nucleoside-phosphorylase
MSEFKNVTAVKKANVYFDGKVSSRVIILPNGERKTLGLMLPGEYTFSTREEEIMEMLAGSMDVKLPGSNEFVTYKEGQKFNVPSDSSFDLKVNEVVDYCCSYIAD
>NC_009089.1|WP_011861289.1|1927095_1929453_+|HAD-IC-family-P-type-ATPase
MDKVNLERYSCDINVGLNKNQLQSRIDDNLINAFDNGKTKTYKQIFKDNIFTLFNLINIVLVCLLVSVGSFKNTLFIFIAVINTIIGVIQEIRAKRLLDNLSVIVSNKVSVIREKEKKEIDVQELVLDDIMILKTGNQICADSKVLNGKLEVNESLVTGESDIIIKNKGDFLYSGSFVVSGEAFVRVENIGKDNYANKIANDAKISKKHNSQLRNSLNAILKIVGIIIIPLGIILFAKQHFGNGDSIATSVVGTVAAVNGMIPEGLTLLTSIALAVGTIKLASHKTLVQELYCVETLARVDTLCLDKTGTITEGKMQVDDIVMLEEVDINEIMGNICNSLKDDNATLNAIRDKYNVLDTYKAKNLIPFSSERKYSGVTFENKGTYLLGAFEFIFKEKNKKLRIEVERYSKKGNRVIVLAHSDSYMEDNNIPEDIKPLAFILILDKIRDEAKETLEFFYNEGVDIKIISGDNPITVSEVARKAGLKTASNFIDATTLKNDSDIYKAVDKYSVFGRVSPQQKKQMILALKKQNHTVAMTGDGVNDVLALKEADCSIAMASGSDVTKNVSNLVLLDSNFASMPKVVMEGRKVINNIQRASSLFLVKTIFSFFLSLLTLFFFSRQYPFVPIQLSLIGAVTVGIPSFFLALEANKSRISGNFLLNILKNALPGALCVTVNVIIVYNIVEYLGYSSSVFSTMCAILTGVCGLLILRQQCLPFNKERLFLIVSMTIAFVIGILFLGGLFSFVALSRELILITMALAILMPIMIKVMLFVLDEILETIVPDLN
>NC_009089.1|WP_011861288.1|1925215_1926673_+|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPB
MKEYNSLLIDISKKGRKAYSLPKLDIDDIKIEDMIDQDMARQSELNLPEVGELELVRHYTLLSNKNFGVDTGFYPLGSCTMKYNPKINEDMAALPNFTGMHPYQSSDTAQGSLSLMYDLSRRLAEITGMDEVTLQPSAGSHGEFTGLMIIKAYHENRGDHKRTKVIIPDSAHGTNPASAAMANFDVIQIASDKNGAVDINVLKEVLNDEVAALMLTNPSTLGLFEKNIKEIATLVHEAGGLLYYDGANMNAIMGITRPGDMGFDVVHLNLHKTFSTPHGGGGPGAGPVGVKKELVPFLPIPVIERKEDKYVLNYDREKSIGKIKNFYGNFGVLVRAYTYILTMGRDGLKEASEMAVLNANYIKESIKDDYILPIDTLCKHEFVLGGLPRGEANIKTIDIAKRLLDYGYHPPTMYFPLIINEALMIEPTESESIETLDSFIEAMKSVAKEAKEEPELLKTAPHNTLVKRVDDARAVKKPILTWSQR
>NC_009089.1|WP_011861287.1|1922741_1925216_+|aminomethyl-transferring-glycine-dehydrogenase-subunit-GcvPA
MNELKRVSLYNIHKELGAKLVEFAGWEMPLEYEGINKEHEKVRKSAGIFDVSHMGEVQIKGAESEKFIQNLVTNDISTLKINDIIYTPMCYENGGVVDDLLIYKFGEEDYLLVINAGNIDKDVAWIIKQSEGYNVDIKNISSEVSQLAIQGPKAEEILQKITDIDLNSIKFYKSIPSIIVCGCPCLVSRTGYTGEDGFEIYCKNKYVEIIWNEVLKVGGEDICPAGLGCRDTLRFEAALPLYGHEINEHISPIEGGLSIFVKTNKESFIGKSILSKEKESGAKRKLVGFEMQGKGMPRNGYDIRIGDKTVGFVTTGCASPTTGKILGMGIIDSEYAKVGNEIGIAIRKKVVPAVIVKKPFYKKQYKKDNIILNKENKFSYIPATSEDKSKMLKVVGLNSVDELFSDIPEEVKLKRDLNLEIGKSELEVSKIVKRLSEENLSLEDLTCFLGAGAYDHYIPSIIKHITSRSEFYTAYTPYQAEISQGTLQVVFEFQSMIAEITGMEIANASMYDGATAAIEACIMAMNQTRKSKIVVSKTIHPETLSVLRTYLQYKDCEIVEIDFCNEYGTTDIEKLKASVDKDTACVLIQTPNFFGIIEEMEEIEKITHENKAMLIMSVDPISLGVLKTPGEIGADIVVGEAQSLGNPLNFGGPYVGFLASKSKYTRKMPGRIVGQSLDVEGKIAYVLTLQTREQHVRREKATSNICSNQALNALVASIYMATMGKEGFKEVGMQSMKKAHYTYNKLVQTGKYKPIFKGKFFKEFAVQGNLNIETINDKLLEENILGGYNLEYNYPELKNSTLLCVTEKRSKEEIDKLVGIMEGL
>NC_009089.1|WP_011861286.1|1921420_1921936_+|HXXEE-domain-containing-protein
MEKYIWLFPLLFIFHDMEEIIGFGIWLKKNKSMLDKKYPFISKIYENYSTEGMAFAVFEEFILCIIFCILTVITENQYVYLLWLGSFIAYTLHLVIHIGQSIIIRKYIPSLITSIICLPISIWCISKSIYIVDCEMSTTILYSIIGIIIVALNLKFAQSLIGKFTKWMSNI
>NC_009089.1|WP_009889552.1|1919165_1920896_+|Na+/H+-antiporter-NhaC-family-protein
MRNKKINIIFLTTIMFIMSTVMVFAEEDIDTIALANAEKFGILTLIPPLVAIILAFITKNVIISLLIGILSGSFIIKASGINVFATFIQAFLDLVDRALVSLADPWNAGIILQVLAIGGVINLVAKMGGAKAIAEALAKRAKSAKGTQLITWFLGLLVFFDDYANSLIVGPMMRPVADKMKISREKLAFIIDATAAPVAGLAIISTWIGLEVGLIHDAFESISIDVDAFGIFLNTIPFRFYNILILAFIVISALLLKEFGPMRKAEIKSRSRKISIDLDEGVEELDDLAPKNGVKLSVWNAIIPIGTLIIVALASFYYSGYTSIMGGDDKALIQLFTNSPYSFEAIKEAFSASDASRALFQSALVASLVAIIMAVVKKIFTISEAIDVWIDGMKSLVITGVILILAWSLSSVIKELGTAKFLIHLLSGSLPPFLLPSLIFGLGAIISFATGTAYGTMGILMPLAIPLAYSLNPDMSYVIVSTSAVLTGAIFGDHCSPISDTTILSSMGAGCNHIDHVNTQMPYAIFTAVITIVFGYIPAGLGLPIYIVLPVAIAAIFVGIQIIGKKVDEAEIELVE
>NC_009089.1|WP_011861285.1|1917695_1918682_-|lipoate--protein-ligase
MLLIYNEKTNPYFNLAMEEYLLKNFDEDLFILWRNEPSIIVGKNQNTLSEINLEYIKEYSIPVVRRQSGGGAVFHDLGNINFTFIACNNNNFSDFRRFTQPIIDLLKTLDVNAEFSGRNDLLIDGKKFSGNAQYNYKNKVMHHGTLLFSSEINDLSKALKVKPIKFEGKGIKSVKSRVTNISEHLHSKMDILEFKDAIMDYLSKTNTDNTNYCLSEHDIKQIEKLTKSKYETWDWNFGNSPKYTLSNELKYSGGNVEFNLNVDKGIITSIKFFGDFFGKCDIAFVENKLIGIRHEENALRNTLDSIEINDYFLGADTDILVSGILGVK
>NC_009089.1|WP_018112776.1|1936903_1937191_+|hypothetical-protein
MKKILYALYSFIVIIANFRLKEKNYNFILLAIFFILLLIQNGVLKTGYQNRATFYQDNYFNGEDKNDKIKFMTIKIFIFLSLPLCFNILFNYLTS
>NC_009089.1|WP_004454500.1|1937729_1938281_-|helix-turn-helix-transcriptional-regulator
MSINTVIAKNLNRLRNERNLSLGQLAELSGVSKVMLSQIEKGDSNPTVNTIWKIASGLNVPYTAILEQPQNETFIVSKTDIDVQVSENKDYRLYCYYPNTPTRNFELFQMELEEGHSYTSVGHSEKSQEYIMIIEGQLKLEVNDSIYQLRENDSICFSAESIHTYHNQGEKTLKAVIINYYPV
>NC_009089.1|WP_162835944.1|1938465_1939434_+|pyridoxal-phosphate-dependent-enzyme
MVMRVLNNVTEAIGNTHMLHLSKIADEFGVQGNIYAKMEYLNPGFSKKDRVALQMITEAENAGLLVPGQAVVELTSGNTGTGLAIACACKGYKFIACMSKGNSMERARMMKALGAEVVLVDQMPNSVHGQVSGEDLALVEIEAQKIAKERNAFRADQFNLEACNHAHEKYTAEEMWEQLDGNIDVFVDFLGSGSTFAGCSKTLKKHNSSIKCYVVEPETAAIYSGKEITDQGHKIQGGGYSMDLPLVDKKLIDGYIQVTDEEATDVARKLAKLEGVFAGFSSGANVCAAIKLLKSSEKGKNIVLTLNDSGLKYLSTDLYEEL
>NC_009089.1|WP_011861293.1|1939728_1941573_+|glycerophosphoryl-diester-phosphodiesterase
MQKRILRNFIFTGKNILSKLVFIIKYNFSTLILFELFHKGLALFFIWPSIRYIFDILIKSLHIVYLNMDNFIKVLTNPMSIVLIILSVIILAFYAFFEFTSVIICLNKSIKYEKIGLFELFKISFENSIKLLYPKNILLFIFVILIIPLVNTVLISGFIGKIQIPEYILDYIKSDIILNIIYMIFLLIIYISVIRWIFSIHEITLNTENFKRARKESVNLIKGKIIRTIIYSLILSLVVAIIGYAIYHSGIIFIGIWTKYCTDMEFLKNVFINRCIAFEEYFRLILSIFIFILDIGFISATYYQYKGVNISKNNIKKEKKSISKIVFNLVLILLISYIESVAFSSHINGMFNTSFSFYTTAIAHRAGAEMAPENTLAAIEEASNAKADYAEIDVQETKDGELIVLHDSNFKRTTGVDKNVWDVNYNEVKTYDAGSFYYYGKGYYDEKFVGEKIPTLKEMIKYSKGKVKLLIEIKLNGHEKGDVVKKVVQLIKENNFENQCIVASMDKTILQKVKKLDENLLTCYFMAIAYGDFSKLNYVDIYGIESTFVNKTVVEKIHKMNKKIFVWTVNSDSLIEKMLDLNVDSIITDNPYLIESAIYWKKNGFISQVSDYLF
>NC_009089.1|WP_011861294.1|1941877_1942408_+|sugar-O-acetyltransferase
MTEREKMLAGELYDCGDIELLTQWHKAKDLVRDYNQTDSSDLEKKEKILNELLGGKGKNLWITAPYYVDYGNNIYFGNNCEVNMNCTFLDDNKIIIGDNALIAPNVQIYTAFHPTNAGDRFGNAKEDGSFEFCKTQTAPVTIGDNVVIGAGSIVTKDIPSNMIAYGNPCRIIRENK
>NC_009089.1|WP_009889562.1|1943510_1943687_-|hypothetical-protein
MFIGEIDKCTHILTAYISSSYDYCNFLDTQLDDFISEYGETVVETCLHQVLLLVSRYN
>NC_009089.1|WP_011861295.1|1944261_1945284_+|membrane-protein
MVNWEIKKLAKSKSMFISLGILVLILMISIFITPVLETESYYIDKEKGRIEDTRSGIDVGNEKFQNKINVLKQFSNQTDTGEFSKKIELMSKKKLDNLSVNEYKDISFWKVFNYRVTNSLINVGMLIIISIIISNIYVDEVVTSVKDIILSSKEKKKALKSKIFVALLVPLVIYSVYLMGIFIITCMQQGVPVNGDLESFRIVDNVVALKTNLSITKYVILNIGIELLMFEGWAMIAIFGSFISKSSISSISFFIFIISITKIMSVIHILPKKLLSVVSNVNYYDLIFGFNKIIGNYLGDIMIFKVNIDIVNIAIGLLMAILIGAMSLCFLVIKSDCISR
>NC_009089.1|WP_011861296.1|1945297_1946185_+|ABC-transporter-ATP-binding-protein
MNKLEIENLSKIYGKKVANDKITVTLENGVYGLLGPNGAGKSTLMKQITTLIKPDEGQILYNGEDIFKMDADYRNILGYLPQEFGVYKNFTAKEFLQYIGALKGLRGKYLNSKIGELLDLVGLYDVRNKSIGKFSGGMKRRVGIAQVLLNDPKIIVLDEPTAGLDPQERARFRNLIAKMSRDKIIILSTHIISDIESVAKETIMIKDGKLLMKGTHKDILSHMENKVYNVQVKNECEVDDIQSKYKVVSIQSDINSIVLRIVSEDIPSEDNIQPVQAKFEDVYMFYFDLEDAREV
>NC_009089.1|WP_009896816.1|1946190_1946964_+|ABC-transporter-permease
MMYLVKAEMIKILKSKSVWIIWLFLIFFGFFLIRKFDVLDTYADIFYKIEGSIPLIGLIMFIITSGNYIKEYDSNMTGLINTTKKGKKSVVLSKLVANGLILSIINISFILLVGIRGFSFFDFKNLNEPIHNLWYFGNSNLNLTVIQMYIIVILTTIFASFIFAQIGLTLSSIFKSAVIPFILGGLIMAIPYFSVGFIPDKAIKFMSVTPNWIMMSQQMVKYNVPSILIVFSIVISIILMIVLTKITYENFTSSKRF
>NC_009089.1|WP_004454491.1|1947075_1947801_+|response-regulator-transcription-factor
MENRVLIIDDEVEILKLLETVLKKEGLNNIYTAKTKKEGLELFKSINPDLIVLDIMLPDGEGYDICKEIRKTSNSPIIFLSAKTEELDKLLGLAIGGDDYVTKPFSPKEVAFRVKAHLRRLSYFSDAQNESKNLNNNEEKIISFGPYILNESRAELIKDGKSIGLSAKELKILSLFAHNQNQIISKEKLWDKVWGEDYVGFDNTIMVHIRKIREKLEDNPSKPEYILTIKGLGYKLAVKED

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Crispr_ID: NC_009089_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_10

2298603-2298770

Orphan

I-A

Consensus_repeat	Method
AGTTTTATATCAACTATGTGGTATGTAAAGTTTTTA	PILER-CR

2 spacers

csa3

The CRISPR arrays of NC_009089_10

>merge|NC_009089|10|2298603-2298770|PILER-CR
TAAAAATTTTACATACCACATAGTTGATATAAAACTTAAGACTAGCAGACTCATAAGCAATTAGTTGCCTCTCTTTACATACCACATAGTTGATATAAAACCTAGAGGCTCTCAGAGAAGTTATAAGATGTTTAGTAACTTTACATACCACATAGTTGATATAAAACT

>NC_009089|10|7|2298603-2298770|PILER-CR
TAAAAATTTTACATACCACATAGTTGATATAAAACT	TAAGACTAGCAGACTCATAAGCAATTAGTTGCCTCT
CTTTACATACCACATAGTTGATATAAAACCTAGAGG	CTCTCAGAGAAGTTATAAGATGTTTAGTAA
CTTTACATACCACATAGTTGATATAAAACT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_003431034.1\|2298044_2298245_+\|cold-shock-protein	unknown	unknown	gnl\|CDD\|224197
NC_009089.1\|WP_009897130.1\|2291447_2292884_-\|cell-wall-binding-protein-Cwp28	unknown	unknown	gnl\|CDD\|380277
NC_009089.1\|WP_009889960.1\|2289018_2289357_+\|DUF3784-domain-containing-protein	unknown	unknown	gnl\|CDD\|378903
NC_009089.1\|WP_071605632.1\|2302906_2302966_+\|IS3-family-transposase	unknown	unknown	unknown
NC_009089.1\|WP_003435225.1\|2301598_2302240_-\|SdpI-family-protein	unknown	unknown	gnl\|CDD\|227945
NC_009089.1\|WP_003435254.1\|2288109_2288721_+\|CoA-pyrophosphatase	unknown	unknown	gnl\|CDD\|239518
NC_009089.1\|WP_009897136.1\|2297642_2297819_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009889969.1\|2302220_2302514_-\|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl\|CDD\|238042
NC_009089.1\|WP_021361893.1\|2307220_2308300_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|223669
NC_009089.1\|WP_003435247.1\|2293711_2294263_-\|tryptophan-transporter	unknown	unknown	gnl\|CDD\|293704
NC_009089.1\|WP_011861417.1\|2303481_2304234_-\|TSUP-family-transporter	unknown	unknown	gnl\|CDD\|182593
NC_009089.1\|WP_011861413.1\|2295112_2295511_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003424195.1\|2300317_2300482_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003435252.1\|2289763_2291200_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	unknown	unknown	gnl\|CDD\|237675
NC_009089.1\|WP_011861415.1\|2299248_2300094_+\|lipoprotein	unknown	unknown	gnl\|CDD\|379023
NC_009089.1\|WP_003435227.1\|2301022_2301355_-\|carboxymuconolactone-decarboxylase-family-protein	unknown	unknown	gnl\|CDD\|367130
NC_009089.1\|WP_003428797.1\|2286354_2286711_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224647
NC_009089.1\|WP_011861418.1\|2304292_2305948_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|227095
NC_009089.1\|WP_009897134.1\|2295866_2296352_-\|SH3-domain-containing-protein	unknown	unknown	gnl\|CDD\|377965
NC_009089.1\|WP_021361892.1\|2298995_2299178_+\|integrase	unknown	unknown	gnl\|CDD\|271189

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003431034.1\|2298044_2298245_+\|cold-shock-protein	gnl\|CDD\|224197	COG1278, CspC, Cold shock proteins [Transcription].	1.41551e-31
NC_009089.1\|WP_009897130.1\|2291447_2292884_-\|cell-wall-binding-protein-Cwp28	gnl\|CDD\|380277	NF033435, S-layer_Clost, S-layer protein SlpA. In Clostridiodes difficile, the S-layer protein precursor, SlpA, is one member of a large paralogous family of protein that share several cell wall-binding repeats. SlpA is cleaved into a larger and smaller protein. The S-layer protein itself is important to adhesion, and portions of it are highly variable, and then N-terminal and C-terminal are well-conserved.	9.77534e-16
NC_009089.1\|WP_009889960.1\|2289018_2289357_+\|DUF3784-domain-containing-protein	gnl\|CDD\|378903	pfam12650, DUF3784, Domain of unknown function (DUF3784). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length.	2.13827e-16
NC_009089.1\|WP_003435225.1\|2301598_2302240_-\|SdpI-family-protein	gnl\|CDD\|227945	COG5658, COG5658, Predicted integral membrane protein [Function unknown].	1.04607e-18
NC_009089.1\|WP_003435254.1\|2288109_2288721_+\|CoA-pyrophosphatase	gnl\|CDD\|239518	cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative stress. CoAse has a conserved Nudix fold and requires a single divalent cation for catalysis. In addition to a signature Nudix motif G[X5]E[X7]REUXEEXGU, where U is Ile, Leu, or Val, CoAse contains an additional motif upstream called the NuCoA motif (LLTXT(SA)X3RX3GX3FPGG) which is postulated to be involved in CoA recognition. CoA plays a central role in lipid metabolism. It is involved in the initial steps of fatty acid sythesis in the cytosol, in the oxidation of fatty acids and the citric acid cycle in the mitochondria, and in the oxidation of long-chain fatty acids in peroxisomes. CoA has the important role of activating fatty acids for further modification into key biological signalling molecules.	2.03701e-53
NC_009089.1\|WP_011861417.1\|2303481_2304234_-\|TSUP-family-transporter	gnl\|CDD\|182593	PRK10621, PRK10621, hypothetical protein; Provisional.	2.33356e-48
NC_009089.1\|WP_021361893.1\|2307220_2308300_-\|alpha/beta-hydrolase	gnl\|CDD\|223669	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only].	4.71956e-16
NC_009089.1\|WP_003435247.1\|2293711_2294263_-\|tryptophan-transporter	gnl\|CDD\|293704	pfam17099, TrpP, Tryptophan transporter TrpP. TrpP is a bacterial transmembrane protein that is probably involved in tryptophan uptake. Its expression is regulated by tryptophan-activated RNA-binding regulatory protein (TRAP).	1.63015e-41
NC_009089.1\|WP_009889969.1\|2302220_2302514_-\|winged-helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238042	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.	4.16448e-22
NC_009089.1\|WP_003435252.1\|2289763_2291200_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	gnl\|CDD\|237675	PRK14328, PRK14328, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional.	0
NC_009089.1\|WP_011861415.1\|2299248_2300094_+\|lipoprotein	gnl\|CDD\|379023	pfam13026, DUF3887, Protein of unknown function (DUF3887). This domain family is found in bacteria and archaea, and is approximately 90 amino acids in length.	0.00168457
NC_009089.1\|WP_003435227.1\|2301022_2301355_-\|carboxymuconolactone-decarboxylase-family-protein	gnl\|CDD\|367130	pfam02627, CMD, Carboxymuconolactone decarboxylase family. Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain.	6.41975e-19
NC_009089.1\|WP_003428797.1\|2286354_2286711_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|224647	COG1733, COG1733, Predicted transcriptional regulators [Transcription].	5.72374e-31
NC_009089.1\|WP_011861418.1\|2304292_2305948_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|227095	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms].	1.86621e-24
NC_009089.1\|WP_009897134.1\|2295866_2296352_-\|SH3-domain-containing-protein	gnl\|CDD\|377965	pfam08239, SH3_3, Bacterial SH3 domain.	0.000235563
NC_009089.1\|WP_021361892.1\|2298995_2299178_+\|integrase	gnl\|CDD\|271189	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons. This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.	1.18541e-07

>NC_009089.1|WP_003431034.1|2298044_2298245_+|cold-shock-protein
MNNGIVKWFNNEKGFGFISMEGRDDVFAHFSAIQTSGFKSLEEGQQVSFDIVKGARGPQAENITIL
>NC_009089.1|WP_009897136.1|2297642_2297819_+|hypothetical-protein
MFGNKMDKCTHVLTAYISSSYDYCNFLDTQLDDFILEYGENVVESCLHQVMVLVSKYN
>NC_009089.1|WP_009897134.1|2295866_2296352_-|SH3-domain-containing-protein
MISELMLKNFRKSSINFKTKIKLNLREKPDINSLKLKSIPEGKIVKLKCVDGIWAEVESNYDKGWLLYKYLERLSNAKNNSNDTIKNRKKNYIGNIRTNGLSLELRNDRTLESKVITTIPDGFKVEVCYSVGKWARVNINKNEKRYSGYVYNQYIEEHLSL
>NC_009089.1|WP_011861413.1|2295112_2295511_-|hypothetical-protein
MNKKKKLIGIAISFLLIISIINPLQVEAEAIIESSVYISSIKENYTYDNTKFKTIKSKSRHKSRKYNKSKVKLKKRSIRTKKYGYQTINKYKRQNARRHNILTKLILFIIVIFLVIVLVVLIFIKRKKKKFY
>NC_009089.1|WP_003435247.1|2293711_2294263_-|tryptophan-transporter
MKTNTKKLTLNAILLAMGLLIHQITPAIGLPMKPDVPLAMLFVILVLNRDDYKTCLIAGIVTGIFTALTSSFPGGQIPNVIDKTLTANIVFLLMNISYNMPFIKKLAKKTQDTVVVAIIMPIGTLVSGTIFLLAAQAIVGLPGASFTALFLAVVLPAVLINLVAGIFLFKIVSLSIRRVSYQA
>NC_009089.1|WP_009897130.1|2291447_2292884_-|cell-wall-binding-protein-Cwp28
MKFYKRILTLTLSISFVFANIQLVDAISSVEKIQGKNKYEIAGKIADKNAYKTAILINTSNSIADGLSASGLAGALNAPILLTEKNTIPTETSARLKNVSKVYIIGGTYSISTSVENSLKSKKMKVVRIKGNDRIKTSYNVAKEINSIKKVNTVMLTNAYKGEADAISIASVAARDKAPIILTNGQSIPFSTSGLKSYVIGGTASMSTTLVNNTKSTRLGGSTRFETNKAIINKFYKDAREFYIAGAYELTNALVGSSLSKHGPMVLVNDGSNKSILKNAKKITSIGYIDSNIVQQCLNITNGIGDINTGVVKNVKPTTKTIKDGMYKVGKDISAGEYLITSNSGSYASYYEVTSDSTGNADSILSNDIFSGTRYITLKNGQYIKIEDSTMTLAKYAKAQKAKNGKFGNGMYKIGLEIPAGEYIIMSNSSDAYYEVRNDSLGNAEGIVTNDTFSGRRYITVEEGQYLILNDCYLIENE
>NC_009089.1|WP_003435252.1|2289763_2291200_-|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB
MSKRKQVTIPIEKIQEQDKYIEQIHRQNEEYFNRTGKRKLVFTQTFGCQMNEHDSEKLCSMLEEMGYQMSMMVEESDLIIYNTCAVRENAELKVYGNLGQLKHLKGKNPDMKIAVCGCMMQQPHVVEELRKKYKHVDLIFGTHNLYKFPQLLTESINSDKMLVDVWDVDGEVIEGLRSNRKFELKAFVNIMYGCNNFCTYCIVPYTRGRERSRTPEDIINEIKELVANGTKEITLLGQNVDSYGKTLENPVSFSELLRKVNDIEGIERVRFMTSHPKDISDEVIYAIRDCDKVCEFLHLPIQCGSSSLLKKMNRHYTKEYYLEIIEKAKKEVPGIAFSTDLMIGFPGETEEDLLDTLDVVEKVRYDSAFTFIYSKRQGTPAAKMENQIPEDIKHDRFNRVLEAVNRISAEINDGYKDRIVEVLVEGRSKNNENKFAGRTRQNKLVNFEGGNDDLIGKLVMVKITEPRTFSLNGILVNN
>NC_009089.1|WP_009889960.1|2289018_2289357_+|DUF3784-domain-containing-protein
MFAVGFVVIIALAFFILSVLLFNGKASMLLAGYNSMSKKEKARYDKKKLCRSSSIVTFIVSIMLFIMAFLGYRIESGQMDEKKMVPFSIIFIIVILSSVFFNILYSNKKCKK
>NC_009089.1|WP_003435254.1|2288109_2288721_+|CoA-pyrophosphatase
MINDIKNKFKNYKPYINGYKNMKRASVLIPIVEINNTHYILFEVRSKNLKHQPSEISFPGGKIESGETPYEAVIRETCEELGTFSDNIEVISSLDLLITPVKFIIHPYLGYIKNINNLNINKDEVDHTFLVPIKYLLENPPNTYSNTVKVFPDENLPYGSIPNQKDYKFESGSYPILFYKYKDYVIWGMTAKILENFLNFLSE
>NC_009089.1|WP_003428797.1|2286354_2286711_-|helix-turn-helix-transcriptional-regulator
MDIDNNFEEFPNIEERQKDFNCSIGFTMTVIGSKWRAIILWHILKQEPIRYSQLKKEVVHISHKILSQELKYLERDGLIKRISYPTIPPKVEYLSTKRGKSLESILLELCNWGKQYMR
>NC_009089.1|WP_021361892.1|2298995_2299178_+|integrase
MFKFYNNATLMFLPGTNIKTISERLGHADIKITMNSYSQFLEEMDREAFENLSKILFIVF
>NC_009089.1|WP_011861415.1|2299248_2300094_+|lipoprotein
MNIIKSITLLLTLLIVILMTGCSPRESASEVAKKYIDKMNSGDYETAYSLLSKDSKKKISIENLEEFQNILVSTKRIISYKIGKEKIIKKYKHDGKEYKNVVKLEETFNIKNLLYKKDDSLKVNRYFVVENNKYKLLLYESFKKEFGINSMDLAQLKLNDFGLKYFKEVDLILKKAIAINPTDSKLYYAQACNYMNFDGFPGYSDTTYNALDSINKSLKYLDKNDSDYKKNASNIYNLKGVILMFHKRFDEAQQYLNKALYFNKDNEDPKYNLNTIKKHLN
>NC_009089.1|WP_003424195.1|2300317_2300482_-|hypothetical-protein
MFGKPKESVRFLDFNDVAEKFGEKKAVAIFDAIAGKKSKEHIIKDIEKLVKNEV
>NC_009089.1|WP_003435227.1|2301022_2301355_-|carboxymuconolactone-decarboxylase-family-protein
MNTREMKEYRVFYNKKLSETDEFFRVFGSLDDKTYSEGAISKKNKELMGLAISILSRCDECICYHIEGCINSGASKDEIIEAIKIGVIGGGSITYPNARFAIKILEEFNI
>NC_009089.1|WP_003435225.1|2301598_2302240_-|SdpI-family-protein
MKKAINKQFILSTLICFIPFIVSIYFYNRLPNEVAIHFDNYGNPDNYAPKVIAAFGVPLLMLCIHLYTWFRLENEPKKANFSNVIQNLSKWGVAILSVIIQIMMVLYSTGVSLESNFYTGLILGIIVILFGNYLPKCKRNYSVGIILPWTLNDEDNWNKTHHLAGWIWLIGGILLIINAFINIPFYNIFVIFVIVILPFIYSYLMYKISGKNN
>NC_009089.1|WP_009889969.1|2302220_2302514_-|winged-helix-turn-helix-transcriptional-regulator
MGFPETFKALSDPIRREILVMLRENKMSAGEISEKFNMTNATISYHLSQLKKAGLIFETKYKNFIFYEINISVFEEVMLWFSQFMEKGEKDNEKSDK
>NC_009089.1|WP_071605632.1|2302906_2302966_+|IS3-family-transposase
MTEYIYYYNNKRIKKINLA
>NC_009089.1|WP_011861417.1|2303481_2304234_-|TSUP-family-transporter
MFSVIFLCIGGFLAAFVDSIAGGGGLISMPVLMAIGVPVHLAIGTNKFAASAGCISSAYRYAKSGKINNNLLKKLVPFTIIGSVLGVRCVLSISEEILNVLVVVMILIVAIYTFISKNLGQEDNFEAVNKKNLRLGMLMALIMGFYDGFFGPGTGTFLTFGFIKIYGYDFLHASANTKILNLTSNITSLLLFMINGQVDYKIAIVFALVMIMGAYVGAKVAIKKGSKMIKPIFLVMALFMVVKLVYQTLV
>NC_009089.1|WP_011861418.1|2304292_2305948_-|helix-turn-helix-domain-containing-protein
MEYFSESNNEVQKFDWGEVMWIHEPSKTQFNRLSAGIVRFFPGNYQEKHFHLSEEQLLYVIQGEGIQIIDGKKVNIKETSIVYCPPYSEHEIINTGKIDLVILITYVPHKFSSLRQIPIVFSENNIQELVNVNIIENLANQISNILKLRISVYDLKYKEIFETKKENKFCDICKNIKQCTKKLVKSINNDNFEKVYHCEYGVSSLEIPIVLEENIVGYIECGNFIVYKSIDIDKNLSELSSSSGIDIKYINKIYNEFPLNPKSRLYVLKENLLMMSEFIQEIAKRNFFENQLSIKDEEILKSRKENIRLEEALKKANSRLLEEEYIINPIDMFNNSSKEYPFELELYIEKEIKNMNLEGVYNLIDTNKLRYNDVRDTIQEMIFVLSRTVLRDLEDLKLISYLRNKYNKKISLVNSDEDLWNVLFEFSKECIDKNRAFWRKDKGNLIENINEYIKKYYKENINLNSISDVFFISPNYLSSIFNERNKVSITEYINLLRIEESKKYLLDRSMSISDICKKVGFNNSSYFSQIFKKFNSITPNEYRKNMLDNKY
>NC_009089.1|WP_021361893.1|2307220_2308300_-|alpha/beta-hydrolase
MILITLCILVAVFVLAFAGLRLIAPTIIRTSHKIEAPGIDRMEMVEIGGIQQALYIRGQNADNPIILWVHGGPGNSMMPFLHLYQYEWENDFTVVNWDQRNVGKTYFANDPAAVLQTMSAERVLQDVHEVTAYLKQEFNKEKIILIGHSWGTVLGTMAVQTYPEDYSAYIGIAQTVNMVDNERVGYEKTLEMVKAAGKQKDIKALEAIAPYPPAKYGPSYLAALMTVRTYQSKYGLSINMDLGNIISILATPYYSLRELKNTAIFNPNAIDNQGDVLRFLVEEADIRNYGVDYQVPVYYIMGENDYNSPYLPAKKFFDEIVAPDKQIFFIPDADHLPFLSKKAEFDCVLLEEIAPKLAK

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Crispr_ID: NC_009089_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_11

2662916-2663867

Orphan

I-A

Consensus_repeat	Method
ATTTACATTCCATATAGTTAATCTAAAAC	CRISPRCasFinder
ATTTACATTCCATATAGTTAATCTAAAAC	CRT
GTTTTAGATTAACTATATGGAATGTAAAT	PILER-CR

14 spacers

The CRISPR arrays of NC_009089_11

>merge|NC_009089|11|2662916-2663867|CRISPRCasFinder,CRT,PILER-CR
ATTTTGAATCCACATAGTTAATCTAAAACACAATTATTAATTGTTTTATTAGTGAAATCACAGCAATTTACATTCCATATAGTTAATCTAAAACATATAAAATGGGATTAGTAAAAAACACAACAGGAACATTTACATTCCATATAGTTAATCTAAAACTTTCTTCGTCTTTAGATGATTGTTTTATTGTTCATCATTTACATTCCATATAGTTAATCTAAAACATTTTTATCACCTGAGATAGTAATAGTCGCTTTGTCATTTACATTCCATATAGTTAATCTAAAACATAATGTATTGAAAAATCAAATAGGCGTGCAACTTTTATTTACATTCCATATAGTTAATCTAAAACGTATGCTTGTTTATTATATTTATTCAATAGTCATGAGAATTTACATTCCATATAGTTAATCTAAAACCCACGCATTTTAGTTCAAATTCGAAGTTTTTGGCTGATTTACATTCCATATAGTTAATCTAAAACCTATCCTTTCATTCATTTAAAATTTATTCCTTTCAAATATTTACATTCCATATAGTTAATCTAAAACACGACGTTGAGATTGCGGAGCTTCTCAACCTTGTACGCATTTACATTCCATATAGTTAATCTAAAACGTTCATCAGATGGATATGCAAATGGAGATATAAAGTTATTTACATTCCATATAGTTAATCTAAAACTTTATATCAGTCTTTTTAGTCGCTGTCTGAATCTCCTCATTTACATTCCATATAGTTAATCTAAAACACTATCTAAAAGATGATAATAGCTACATTTTGTACGTTATTTACATTCCATATAGTTAATCTAAAACTTGTAGATTTTGTAAGTAATGGTTTTTCGGAAAAAGATTTACATTCCATATAGTTAATCTAAAACAAAATAAGCTATGAAGCTAAAGGAGAAATGAAAGGAGATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|11|10|2662916-2663867|CRISPRCasFinder
ATTTTGAATCCACATAGTTAATCTAAAAC	ACAATTATTAATTGTTTTATTAGTGAAATCACAGCA
ATTTACATTCCATATAGTTAATCTAAAAC	ATATAAAATGGGATTAGTAAAAAACACAACAGGAAC
ATTTACATTCCATATAGTTAATCTAAAAC	TTTCTTCGTCTTTAGATGATTGTTTTATTGTTCATC
ATTTACATTCCATATAGTTAATCTAAAAC	ATTTTTATCACCTGAGATAGTAATAGTCGCTTTGTC
ATTTACATTCCATATAGTTAATCTAAAAC	ATAATGTATTGAAAAATCAAATAGGCGTGCAACTTTT
ATTTACATTCCATATAGTTAATCTAAAAC	GTATGCTTGTTTATTATATTTATTCAATAGTCATGAGA
ATTTACATTCCATATAGTTAATCTAAAAC	CCACGCATTTTAGTTCAAATTCGAAGTTTTTGGCTG
ATTTACATTCCATATAGTTAATCTAAAAC	CTATCCTTTCATTCATTTAAAATTTATTCCTTTCAAAT
ATTTACATTCCATATAGTTAATCTAAAAC	ACGACGTTGAGATTGCGGAGCTTCTCAACCTTGTACGC
ATTTACATTCCATATAGTTAATCTAAAAC	GTTCATCAGATGGATATGCAAATGGAGATATAAAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTTATATCAGTCTTTTTAGTCGCTGTCTGAATCTCCTC
ATTTACATTCCATATAGTTAATCTAAAAC	ACTATCTAAAAGATGATAATAGCTACATTTTGTACGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTGTAGATTTTGTAAGTAATGGTTTTTCGGAAAAAG
ATTTACATTCCATATAGTTAATCTAAAAC	AAAATAAGCTATGAAGCTAAAGGAGAAATGAAAGGAG
ATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|11|6|2662916-2663867|CRT
ATTTTGAATCCACATAGTTAATCTAAAAC	ACAATTATTAATTGTTTTATTAGTGAAATCACAGCA
ATTTACATTCCATATAGTTAATCTAAAAC	ATATAAAATGGGATTAGTAAAAAACACAACAGGAAC
ATTTACATTCCATATAGTTAATCTAAAAC	TTTCTTCGTCTTTAGATGATTGTTTTATTGTTCATC
ATTTACATTCCATATAGTTAATCTAAAAC	ATTTTTATCACCTGAGATAGTAATAGTCGCTTTGTC
ATTTACATTCCATATAGTTAATCTAAAAC	ATAATGTATTGAAAAATCAAATAGGCGTGCAACTTTT
ATTTACATTCCATATAGTTAATCTAAAAC	GTATGCTTGTTTATTATATTTATTCAATAGTCATGAGA
ATTTACATTCCATATAGTTAATCTAAAAC	CCACGCATTTTAGTTCAAATTCGAAGTTTTTGGCTG
ATTTACATTCCATATAGTTAATCTAAAAC	CTATCCTTTCATTCATTTAAAATTTATTCCTTTCAAAT
ATTTACATTCCATATAGTTAATCTAAAAC	ACGACGTTGAGATTGCGGAGCTTCTCAACCTTGTACGC
ATTTACATTCCATATAGTTAATCTAAAAC	GTTCATCAGATGGATATGCAAATGGAGATATAAAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTTATATCAGTCTTTTTAGTCGCTGTCTGAATCTCCTC
ATTTACATTCCATATAGTTAATCTAAAAC	ACTATCTAAAAGATGATAATAGCTACATTTTGTACGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTGTAGATTTTGTAAGTAATGGTTTTTCGGAAAAAG
ATTTACATTCCATATAGTTAATCTAAAAC	AAAATAAGCTATGAAGCTAAAGGAGAAATGAAAGGAG
ATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|11|8|2662981-2663867|PILER-CR
ATTTACATTCCATATAGTTAATCTAAAAC	ATATAAAATGGGATTAGTAAAAAACACAACAGGAAC
ATTTACATTCCATATAGTTAATCTAAAAC	TTTCTTCGTCTTTAGATGATTGTTTTATTGTTCATC
ATTTACATTCCATATAGTTAATCTAAAAC	ATTTTTATCACCTGAGATAGTAATAGTCGCTTTGTC
ATTTACATTCCATATAGTTAATCTAAAAC	ATAATGTATTGAAAAATCAAATAGGCGTGCAACTTTT
ATTTACATTCCATATAGTTAATCTAAAAC	GTATGCTTGTTTATTATATTTATTCAATAGTCATGAGA
ATTTACATTCCATATAGTTAATCTAAAAC	CCACGCATTTTAGTTCAAATTCGAAGTTTTTGGCTG
ATTTACATTCCATATAGTTAATCTAAAAC	CTATCCTTTCATTCATTTAAAATTTATTCCTTTCAAAT
ATTTACATTCCATATAGTTAATCTAAAAC	ACGACGTTGAGATTGCGGAGCTTCTCAACCTTGTACGC
ATTTACATTCCATATAGTTAATCTAAAAC	GTTCATCAGATGGATATGCAAATGGAGATATAAAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTTATATCAGTCTTTTTAGTCGCTGTCTGAATCTCCTC
ATTTACATTCCATATAGTTAATCTAAAAC	ACTATCTAAAAGATGATAATAGCTACATTTTGTACGTT
ATTTACATTCCATATAGTTAATCTAAAAC	TTGTAGATTTTGTAAGTAATGGTTTTTCGGAAAAAG
ATTTACATTCCATATAGTTAATCTAAAAC	AAAATAAGCTATGAAGCTAAAGGAGAAATGAAAGGAG
ATTTACATTCCATATAGTTAATCTAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_004454566.1\|2657056_2657749_-\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_009089.1\|WP_011861519.1\|2669194_2669689_+\|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein	unknown	unknown	gnl\|CDD\|130771
NC_009089.1\|WP_004454589.1\|2665250_2665403_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_021361915.1\|2662572_2662725_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_004454578.1\|2661426_2661588_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003423163.1\|2671427_2671628_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224393
NC_009089.1\|WP_009897465.1\|2660181_2660499_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861514.1\|2660634_2661099_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861513.1\|2659602_2659899_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009897482.1\|2665676_2666000_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_004454601.1\|2670077_2670248_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009897457.1\|2654800_2656861_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|340400
NC_009089.1\|WP_004454592.1\|2666035_2666290_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861520.1\|2671075_2671426_+\|DUF3796-domain-containing-protein	unknown	unknown	gnl\|CDD\|372251
NC_009089.1\|WP_003423177.1\|2658953_2659187_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224393
NC_009089.1\|WP_009890506.1\|2671950_2672127_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_009897459.1\|2659170_2659584_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861517.1\|2664133_2665057_-\|SHOCT-domain-containing-protein	unknown	unknown	gnl\|CDD\|378276
NC_009089.1\|WP_011861518.1\|2668013_2668391_-\|beta-lactams-repressor	unknown	unknown	gnl\|CDD\|367747
NC_009089.1\|WP_009897458.1\|2658360_2658735_-\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|367747

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_004454566.1\|2657056_2657749_-\|response-regulator-transcription-factor	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	4.68718e-78
NC_009089.1\|WP_009897457.1\|2654800_2656861_-\|sensor-histidine-kinase	gnl\|CDD\|340400	cd16923, HATPase_VanS-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Enterococcus faecium VanS. This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Enterococcus faecium VanS HK of the VanS-VanR two-component regulatory system (TCS) which activates the transcription of vanH, vanA and vanX vancomycin resistance genes. It also contains Ecoli YedV and PcoS, probable members of YedW-YedV TCS and PcoS-PcoR TCS, repectively. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); most also have a HAMP sensor domain.	3.43663e-42
NC_009089.1\|WP_011861519.1\|2669194_2669689_+\|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein	gnl\|CDD\|130771	TIGR01710, Type_II_secretion_system_protein_G, type II secretion system protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis].	3.8278e-14
NC_009089.1\|WP_009897458.1\|2658360_2658735_-\|transcriptional-regulator	gnl\|CDD\|367747	pfam03965, Penicillinase_R, Penicillinase repressor. The penicillinase repressor negatively regulates expression of the penicillinase gene. The N-terminal region of this protein is involved in operator recognition, while the C-terminal is responsible for dimerization of the protein.	5.07494e-20
NC_009089.1\|WP_003423177.1\|2658953_2659187_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|224393	COG1476, COG1476, Predicted transcriptional regulators [Transcription].	1.08383e-19
NC_009089.1\|WP_003423163.1\|2671427_2671628_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|224393	COG1476, COG1476, Predicted transcriptional regulators [Transcription].	1.69812e-18
NC_009089.1\|WP_011861517.1\|2664133_2665057_-\|SHOCT-domain-containing-protein	gnl\|CDD\|378276	pfam09851, SHOCT, Short C-terminal domain.	1.21779e-06
NC_009089.1\|WP_011861518.1\|2668013_2668391_-\|beta-lactams-repressor	gnl\|CDD\|367747	pfam03965, Penicillinase_R, Penicillinase repressor. The penicillinase repressor negatively regulates expression of the penicillinase gene. The N-terminal region of this protein is involved in operator recognition, while the C-terminal is responsible for dimerization of the protein.	1.31313e-07
NC_009089.1\|WP_011861520.1\|2671075_2671426_+\|DUF3796-domain-containing-protein	gnl\|CDD\|372251	pfam12676, DUF3796, Protein of unknown function (DUF3796). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are approximately 120 amino acids in length.	1.22368e-34

>NC_009089.1|WP_021361915.1|2662572_2662725_-|hypothetical-protein
MKNCRKDKRGFSVLLDKEKLDKFDEVLEEKNLTKKEWLEEKIDEELEQKE
>NC_009089.1|WP_004454578.1|2661426_2661588_-|hypothetical-protein
MCENLLDNMYIEKRKEEYRIKLLKIRETDIDIYNKLESIVYKLSEKKLEKNNK
>NC_009089.1|WP_011861514.1|2660634_2661099_+|hypothetical-protein
MDFGEVKSELSDKDLKDNEEALNKYKKYYLKVYKYYSEMDSIKSIQDIEIEQSRLKGQLQKNSNPIFALYISIMAVVFSTTINLTFDLSDITNYFIRMIMTLLFIVLLIFLVNKGILPIAIPYRNNIQFYTTALDVLEDMKNKILRERKYKKRR
>NC_009089.1|WP_009897465.1|2660181_2660499_+|hypothetical-protein
MDFGNINLILIGIIVIIGTTIIYLIKPKTAFCSKKYFNKLESIYGNIDKKKTVKLEVLYRYVTGLEYIAIGLFTRRLDITIIAIILVAIITTALYYLIRKKYITI
>NC_009089.1|WP_011861513.1|2659602_2659899_+|hypothetical-protein
MYFKTYILKREVNNKQLEITRSFDLDNLICTATEILKDNEIDLIITDEVNNVVWRNEKSTPPARECLVIAIEVYWWYTSIFLLYHINYVIKKNYLNRF
>NC_009089.1|WP_009897459.1|2659170_2659584_+|hypothetical-protein
MKVKSKRSFIVGIIVCVLCCASLVIYCILKDKRFLISSFLLIVIAIFNFCNAFSRKGIVEELHDSTDERDLYLTMKTSHILVKIMNYTLFTFTFLFIIAYSAWKNQSLLVIAITLCVIEIFLFVAYLLINIFLEKKE
>NC_009089.1|WP_003423177.1|2658953_2659187_+|helix-turn-helix-transcriptional-regulator
MKTKVREFRTNMGLTQQQLADLVHVSNRTIISIEKEQYSPSLMLAYRMAQVFGTTIEELCCLKENKEMEDKKHESKE
>NC_009089.1|WP_009897458.1|2658360_2658735_-|transcriptional-regulator
MKISKLPEAELKVMRYICEANKVLTSRELVAAMEEKYEWNESTTFTVLKRLERREFLSTEKIGKLTHYNILVKEKKYLRFETKEFLKNIHKNSISSLMSALHGEDDEVDEDKLSELEECFKNLK
>NC_009089.1|WP_004454566.1|2657056_2657749_-|response-regulator-transcription-factor
MYNILVVDDDKEIVDSIEIYLKSEGFKIYKAYDGMKALEIITENDIHLILMDIMMPKLDGIKATVKIREERNIPIILISAKSEDTDKIIGLNIGADDYITKPFNLLELIARVKSNLRRYVTLGNYEDTCKEILKSGALELNTLTKEVKIDGENIKMTPIEYKIIELLLENKGRVFSIDEIYEKVWNEESFNSENTVAVHIRRIREKIEINPKEPRFLKVVWGVGYKIEKF
>NC_009089.1|WP_009897457.1|2654800_2656861_-|sensor-histidine-kinase
MEKYRVLKLVSLIIISISFPLTILLVTIGLAEPKYNIQKTSTKSGIFDISDDFYDSNIFDEGTMASLLPKFKLSVGGKLTSKEKGKFQQEGKSIDLSSSDSEYDKIMINEQASEEYLSYLKNIKVYVINTYTGVFYTNTSYASLYDFKQKTKSYCNVEIINKIGKSSYIKTINGEKFELNNLSLELNEVDEGFEAYVSFPEEPTIEDGIVYTNFQIFKQATEKVRLFFVASLSLAIICLLSIILYIKIKGEVLKRNNVFLLIYSKIPMEFNVILVSISIAILTIYALAVSYHIDVIALVSLSLLIVSNNIFFINVQLSYLENKMCIFKTSIIVRVILWLIKTVREVSNAIKKVSLARKVIVIVIISLALIMVISTRSIGMGLLFSICIFLGFTIYITKRLSYLSYVIEGTERIKKGELDYKIKITGNDNFTSLAENINNIGEGLDRAIEEQVKSERMKSDLITNVSHDLKTPLTSIINYVDLIKKEESIQPEYINDYINVLESKSKRLKLLIEDLFEASRVSSGNIELQISKIDLVQLLRQSIGELEEKLSKNNLYLKLNVPNDKVYIWADGRRMYRVFENLLSNIAKYSLEETRVYIDVYDYGENVKVTMKNISSYELNFDPSEIMERFKRADESRNTEGSGLGLAIARDLVALQGGKFYIEIDGDLFKANLEFQKYEEEITNME
>NC_009089.1|WP_011861517.1|2664133_2665057_-|SHOCT-domain-containing-protein
MVGAFVLPNYAITLSEMSNLWGNFTMWILVPIITIVLLIIAVSSMQYILVMIAFLLIIYSFIEKKIVMALVSVLFFTYSIYLCATWKDKSLIADNKVETVKAQRETVEREKEMERRRIQEEVDKERYIEKHGMEISENDLKVKLEALVPQEYKGKKYELKVEKFKRYSMYFDLTVQNEKFSNSEECKKFVKEIANDLKKIKISKAYFKFHSKDDGGIYNSVYIDYFRNIQNNVDNVENLEFNEFELKTEEEEKREQEKIEQEKNSYNNYIQNRVVDPLDRIKKLKELLDSGAITQEEYNKKKKELLE
>NC_009089.1|WP_004454589.1|2665250_2665403_-|hypothetical-protein
MDNFLFNVLASVTASYIVYLISKLIKKVKSHSTAKSDLKIDINFKYHRKK
>NC_009089.1|WP_009897482.1|2665676_2666000_-|hypothetical-protein
MARDVFSVKMTPLEAQKMVEKNLEADLVSVDIYNLENNKSIIVTIFEKYYARSNSDAGLVVICENTTGKTLVKITSTGSAIGLFQIDWGTGNNLIKRVKKILIDYII
>NC_009089.1|WP_004454592.1|2666035_2666290_-|hypothetical-protein
MENKDIKLTICIFAFVIGIIVLFCCIGLGQFNMDCIIKQNGGSIATEQYNIYLEQSISQYRNFGSILVLLGGIGILFDKSVRKY
>NC_009089.1|WP_011861518.1|2668013_2668391_-|beta-lactams-repressor
MKEEILIEKLLRVELIVMEYLWKKDTLMPKKEIVKEIKQIYGWHKSTIKILLKRLVDKRYLARYIINFQSYYKIIIDNKEYYTFKKKVLKSSKSIKIMHSLTTIHKNVSKEKLDLLDEYYRNLKE
>NC_009089.1|WP_011861519.1|2669194_2669689_+|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein
MKNKKGFTLVELLVVIAIIGILAIVALPALFKNIEKAKIAKLEADISAIKSASLSYYADESKYTDGGMISWVKKDGKIIINGGFKDDPLADKIENLGMPYNGSYLLMSSPGHEKYLELSILPEGEISKSGLDKLKSDYGSSIDIKNDQNKIDIVIKLLNDKSNT
>NC_009089.1|WP_004454601.1|2670077_2670248_+|hypothetical-protein
MHVYQPKTSEYLLNTSAKSYLSSIVFLFDYITKNESRYAFFIIDFPFLSLDIFYKF
>NC_009089.1|WP_011861520.1|2671075_2671426_+|DUF3796-domain-containing-protein
MIQKKFFMGFCGFLGFLSLRYFSSGNVADLTYIGFFAFFSNFIIAKINGDKADERYVQDEKAAMAFTGQLAIIELFILWCITIVSRNVELMCVLLSITYAITLNVYAIKLYILEEK
>NC_009089.1|WP_003423163.1|2671427_2671628_+|helix-turn-helix-transcriptional-regulator
MPKFICNLKKYRQLKELTQEQLAEKVGVRRETIMRLEAGKYNPSLKLAIDISKIVDTPIDELFIFD
>NC_009089.1|WP_009890506.1|2671950_2672127_+|hypothetical-protein
MFRDKMDKCTHMLTAYIGSSYDYCDFIDTQLDDFILEYGEKVVESCLHQVMVLVSKYN

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Crispr_ID: NC_009089_12

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_12

2825549-2825706

Unclear

Consensus_repeat	Method
AGGTTTAAGATTAACTAAGTGG---------ATTTCA	PILER-CR

2 spacers

cas3,cas5,cas7,cas6

The CRISPR arrays of NC_009089_12

>merge|NC_009089|12|2825549-2825706|PILER-CR
AAATCCGATTAGTTAATTTTAAACCTAATAATAAAACTTCTATTATATCTACTATATCAATATTTGAAATCCACTTAGTTAATCTTAAACATACAAAATCTCCAACTTATAATTATTTTCGCGATGTACCTGAAACCCACTTAGTTAATCTTAAACCT

>NC_009089|12|9|2825549-2825706|PILER-CR
AAATCCGATTAGTTAATTTTAAACCTAA	TAATAAAACTTCTATTATATCTACTATATCAATATTTG
AAATCCACTTAGTTAATCTTAAACATAC	AAAATCTCCAACTTATAATTATTTTCGCGATGTACCTG
AAACCCACTTAGTTAATCTTAAACCT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_009890655.1\|2820566_2821064_-\|tryptophan-rich-sensory-protein	unknown	unknown	gnl\|CDD\|320706
NC_009089.1\|WP_003430911.1\|2821989_2822340_-\|histidine-triad-nucleotide-binding-protein	unknown	unknown	gnl\|CDD\|238607
NC_009089.1\|WP_004454735.1\|2822382_2823681_-\|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB	unknown	unknown	gnl\|CDD\|223694
NC_009089.1\|WP_011861558.1\|2829095_2830112_-\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818
NC_009089.1\|WP_011861559.1\|2830131_2831607_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003430900.1\|2819810_2820374_-\|ribosome-associated-translation-inhibitor-RaiA	unknown	unknown	gnl\|CDD\|238308
NC_009089.1\|WP_011861562.1\|2834223_2834991_+\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|379258
NC_009089.1\|WP_011861561.1\|2833084_2834194_+\|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC	unknown	unknown	gnl\|CDD\|236947
NC_009089.1\|WP_011861554.1\|2818005_2819349_-\|sporulation-protein-YqfD	unknown	unknown	gnl\|CDD\|377731
NC_009089.1\|WP_003430905.1\|2821174_2821618_-\|GatB/YqeY-domain-containing-protein	unknown	unknown	gnl\|CDD\|370480
NC_009089.1\|WP_011861555.1\|2824459_2825407_-\|50S-ribosomal-protein-L11-methyltransferase	unknown	unknown	gnl\|CDD\|283886
NC_009089.1\|WP_003416618.1\|2821647_2821827_-\|30S-ribosomal-protein-S21	unknown	unknown	gnl\|CDD\|234707
NC_009089.1\|WP_153309814.1\|2832449_2832626_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861557.1\|2828282_2829080_-\|CRISPR-associated-protein-Cas5	cas5	cd09658_cas5_CAS-I-B	gnl\|CDD\|187789
NC_009089.1\|WP_003430913.1\|2823682_2824441_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	unknown	unknown	gnl\|CDD\|236959
NC_009089.1\|WP_009890653.1\|2819361_2819598_-\|sporulation-protein	unknown	unknown	gnl\|CDD\|377934
NC_009089.1\|WP_011861560.1\|2831611_2832349_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	pfam01881_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_009089.1\|WP_003416574.1\|2836587_2837523_-\|ROK-family-protein	unknown	unknown	gnl\|CDD\|224851
NC_009089.1\|WP_011861556.1\|2825847_2828256_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|273707
NC_009089.1\|WP_011861563.1\|2835178_2836552_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|129794

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_009890655.1\|2820566_2821064_-\|tryptophan-rich-sensory-protein	gnl\|CDD\|320706	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family. This family contains tryptophan-rich translocator protein (TSPO), an integral membrane protein that is highly conserved from bacteria to mammals. In eukaryotes, it is mainly found in the outer mitochondrial membranes of steroid-synthesizing cells of the nervous system where it transports cholesterol into mitochondria. It is known to be highly expressed in metastatic cancer, steriodogenic tissues, as well as inflammatory and neurological diseases such as Alzheimer's and Parkinson's. TSPO is also known as the peripheral benzodiazepine receptor (MBR) and its ligands include benzodiazepine drugs, implicated in regulating apoptosis. In human, a single polymorphism A147T is associated with psychiatric disorders; the mutation causes structural changes in a region implicated in cholesterol binding. TSPO is homologous to bacterial tryptophan-rich sensory proteins, and their tryptophan residues are believed to be functionally important. In bacteria, TSPO acts as a negative regulator of expression of specific photosynthesis genes in response to oxygen/light; it catalyzes a photooxidative degradation of Proto porphyrine (PpIX). R. sphaeroides TSPO (RsTSPO) is involved in porphyrin transport, similar to human, while Arabidopsis translocator protein (AtTSPO) is regulated at multiple levels in response to salt stress and perturbations in tetrapyrrole metabolism.	1.41313e-43
NC_009089.1\|WP_003430911.1\|2821989_2822340_-\|histidine-triad-nucleotide-binding-protein	gnl\|CDD\|238607	cd01276, PKCI_related, Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a hydrophobic residue) that is a signature for this family. No enzymatic activity has been reported however, for PKCI and its related members.	1.77543e-54
NC_009089.1\|WP_004454735.1\|2822382_2823681_-\|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB	gnl\|CDD\|223694	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis].	3.32229e-179
NC_009089.1\|WP_011861558.1\|2829095_2830112_-\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	1.61082e-21
NC_009089.1\|WP_003430900.1\|2819810_2820374_-\|ribosome-associated-translation-inhibitor-RaiA	gnl\|CDD\|238308	cd00552, RaiA, RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site. RaiA is also thought to counteract miscoding at the A site thus reducing translation errors. The RaiA fold structurally resembles the double-stranded RNA-binding domain (dsRBD).	1.43831e-27
NC_009089.1\|WP_011861562.1\|2834223_2834991_+\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|379258	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain. This helix-turn-helix domain is often found at the C-terminus of PucR-like transcriptional regulators such as Bacillus subtilis pucR and is likely to be DNA-binding.	3.98516e-15
NC_009089.1\|WP_011861561.1\|2833084_2834194_+\|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC	gnl\|CDD\|236947	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC.	0
NC_009089.1\|WP_011861554.1\|2818005_2819349_-\|sporulation-protein-YqfD	gnl\|CDD\|377731	pfam06898, YqfD, Putative stage IV sporulation protein YqfD. This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis is known to be essential for efficient sporulation although its exact function is unknown.	3.3534e-106
NC_009089.1\|WP_003430905.1\|2821174_2821618_-\|GatB/YqeY-domain-containing-protein	gnl\|CDD\|370480	pfam09424, YqeY, Yqey-like protein. The function of this domain found in the YqeY protein is uncertain.	3.14843e-57
NC_009089.1\|WP_011861555.1\|2824459_2825407_-\|50S-ribosomal-protein-L11-methyltransferase	gnl\|CDD\|283886	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA). This family consists of several Ribosomal protein L11 methyltransferase (EC:2.1.1.-) sequences.	1.48563e-109
NC_009089.1\|WP_003416618.1\|2821647_2821827_-\|30S-ribosomal-protein-S21	gnl\|CDD\|234707	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed.	1.30053e-12
NC_009089.1\|WP_011861557.1\|2828282_2829080_-\|CRISPR-associated-protein-Cas5	gnl\|CDD\|187789	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5. 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; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	1.23004e-10
NC_009089.1\|WP_003430913.1\|2823682_2824441_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	gnl\|CDD\|236959	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional.	7.40285e-85
NC_009089.1\|WP_009890653.1\|2819361_2819598_-\|sporulation-protein	gnl\|CDD\|377934	pfam07873, YabP, YabP family. This family of proteins is involved in spore coat assembly during the process of sporulation.	1.14572e-12
NC_009089.1\|WP_011861560.1\|2831611_2832349_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. 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 broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	2.11584e-15
NC_009089.1\|WP_003416574.1\|2836587_2837523_-\|ROK-family-protein	gnl\|CDD\|224851	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism].	2.61583e-66
NC_009089.1\|WP_011861556.1\|2825847_2828256_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|273707	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.	2.98916e-42
NC_009089.1\|WP_011861563.1\|2835178_2836552_-\|MFS-transporter	gnl\|CDD\|129794	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily. This subfamily of drug efflux proteins, a part of the major faciliator family, is predicted to have 14 potential membrane-spanning regions. Members with known activities include EmrB (multiple drug resistance efflux pump) in E. coli, FarB (antibacterial fatty acid resistance) in Neisseria gonorrhoeae, TcmA (tetracenomycin C resistance) in Streptomyces glaucescens, etc. In most cases, the efflux pump is described as having a second component encoded in the same operon, such as EmrA of E. coli. [Cellular processes, Toxin production and resistance, Transport and binding proteins, Other].	3.58595e-34

>NC_009089.1|WP_011861555.1|2824459_2825407_-|50S-ribosomal-protein-L11-methyltransferase
MNNWIEVTIKTTTEAVEPITNILYEQGAGGAVIEDPKDFLFQKKNELDWDYVEEEVFKKNEEDDVLIKTYVSEEKNVMEFVEIIKQKVLGLKDFGIDIGEGSVSLYQVNEADWANAWKAYYKPTKVGQRVVVKPTWEDYAMQEGDLIIELDPGMAFGTGTHETTSMCIRELEKYVNKDSKVFDIGCGSGILAIAAAKLGAKEVVAVDLDEVAVKVAKENVLENKVEKSVSVMHGNLTDVIKDKADVIVANIIADIIKILAKDVQNFMKEDAIFISSGIILDKVEEVKESLIENGFEIVEVQKLGEWSAIVSKLKK
>NC_009089.1|WP_003430913.1|2823682_2824441_-|16S-rRNA-(uracil(1498)-N(3))-methyltransferase
MDRFFVEKNNINLQDKTCTIEGEDVKHISKVLRCKLGEKLEICDKNNNEYICEIMNIDKSIVNLEILEKVDINRESELKVRLYQGLPKAPKMEMILQKLTEVGVEEIILVQTKRSVVKVDDKKEDKKFERWERIIYEAAKQSKRGKIPKLRGVLSFKEALEDMKKNNVNICPYENERTVSIKHALKKCDSNIDSVGIFIGPEGGFSEEEIEQIQKNNCNVVSLGPRILRTETASVVASTIALYELSDLGGEK
>NC_009089.1|WP_004454735.1|2822382_2823681_-|tRNA-(N(6)-L-threonylcarbamoyladenosine(37)-C(2))--methylthiotransferase-MtaB
MKKVAFYTLGCKVNQYETEAMLELFEKDGYEQVNSEEYADVYVINTCTVTHMSDRKSRQYIRRVKKKNPDAIIAVVGCYSQVSPEEILDIEEVNLVMGTNDRRKIVEEIKKINSSKKVSTVDDIMKVKAFEEIEISQTNGKTRAFMKIQDGCDRFCTYCIIPYARGRVRSRDIDSIVDEVKKLANNGYKEVVLTGIHVASYGKDLKDRDIKLLDVIKQINQIEKIERIRLSSVEPILFTDEFVNEVLKMDKVCPHYHLSLQSGCDETLKRMNRRYTTLEYKTIVDRLRSKMPDVAITTDVIVGFPGETNEEFKKTYEFLKEIELSQMHIFKYSPRKGTPAATMENQVDPQMKHFRSEQLLNLSKVNFNKFATKFIGRELDVLFEQNIEGNKYEGLTSNYIRVVVESDKNIQGQILKVKINDVKDEYVEGILL
>NC_009089.1|WP_003430911.1|2821989_2822340_-|histidine-triad-nucleotide-binding-protein
MDCIFCKIANGEIPSTKVYEDDRVLAFNDLNPVAPYHILVVPKKHYDSLIDIPDKEMDIVSHIHVVINKIAKEKGFDQTGFRVINNCGSDGGQEVKHLHYHILAGKKLPNYEAGQN
>NC_009089.1|WP_003416618.1|2821647_2821827_-|30S-ribosomal-protein-S21
MSEVRVRENETLDSALRRFKRQCAMSGIMSEVRKREHYDKPSVKRKKKAEAARRKNAKK
>NC_009089.1|WP_003430905.1|2821174_2821618_-|GatB/YqeY-domain-containing-protein
MSLKQKLQEDLKSSMKNKDTVRKSVVTLIRASIKQYEVDNRVELDEDGIIDVIAKQLKQRRDALVEFEKAGREDLIKETEGEIEVLKEYLPQQLSEEELEEIVKSTISEVGATSMKDMGKIMSVIQPKVKGRADGKLINKLVKQNLQ
>NC_009089.1|WP_009890655.1|2820566_2821064_-|tryptophan-rich-sensory-protein
MIISVKEIRNFLINIFIPLIIGYLSSILTMIISGTDISTYYLQLTKPSFAPPAFIFPIVWTILYILMGISSYLILRKGYNLPKVRDAIFYYGLQLVLNFIWSILFFGFGLRFTALIDIIIMILVSIIMISKFSKIDKRSGYINLIYLMWLVYAGFLNYFIWFINK
>NC_009089.1|WP_003430900.1|2819810_2820374_-|ribosome-associated-translation-inhibitor-RaiA
MQIIVSGRQMKLTDGIKGYVDGKLSRLEKYLDPESEVKVTVSAKKDRQKVEVTIIPINGQIIRAEDVEDDLYAAIDIVCDKLSRQVVKYKTKVKDKVQNNKSIRFENLDFIDNSSEFDDYDYDDEEDENIVIERRKKFNVKPMSSEEAILQMELVGHNFYMFRNQDNFEINIVYKRKAGGYGLIEQD
>NC_009089.1|WP_009890653.1|2819361_2819598_-|sporulation-protein
MLEISTDLQVNQPVITVTSNTFISIENYLSILEYEVDLIRIKTKVKTIKISGDKLSLKYITDSEIGIKGIIYNVEYVD
>NC_009089.1|WP_011861554.1|2818005_2819349_-|sporulation-protein-YqfD
MISFIRGYYVIVVEGVGLEQFLNHLIRNGISVYNVTRIKNTKMEFHIDRQDIKDFKNVYRGSKFDIKVKQKTGVPFIIKRVYKHKGMWICALVSLFLLMSTSQFVTDVYIQSPEGIKKEALRNELYKVGVRPGVYKKSIDRKEVRDHMMSKFNDVAYLSINVKGTNIFVTVTKKAESLKSTDQSNYCNVIALKNGIIEKVIPRSGKSVIKSGDIVQKGDVLLNGANTKSIPEVWASTFYESTKKASYVDTVNKKTGEKKNIYTLSFYDKEFTMRKNIKYKDYVVENKEKKLSIGNYTFPIKIKTSTFYETKKVEVKRNKEELKKELSEKALKELEYIIPASARIIDVKHNFKVNKNMLEYLITVQTSENIAKIYPLSKSEAERFIKEESKPDEGEEEVPSNPEKRPLNDIRNEFDEDNKDNKDQNNSDENNSNQNSNNSQNNNSNNN
>NC_009089.1|WP_011861556.1|2825847_2828256_-|CRISPR-associated-helicase/endonuclease-Cas3
MKNIMQKEILAKSYNLRTNQQEQTLVEHIKDLFEVLESILELNLYSDKDVEILKICCALHDLGKINSIMQQKMEINNKISYSCSEEERKKLESDKKSLKKIARHNIFSGAFLKDILEKMNLSEEDKLYIYKSIMLHHGNYEDYMRLSISKVQEEIYEYIEKGILEKEEFNLKDIESYINSILNVDFKFGEDVLDYDYIDKLSESMFIDSDYNNGQIDDSVLNYRKFKYILYKGMLNLIDHSASSRQKGIKFYNDFTDEEIDNMILNEIYKSQGNLEKNNIEFNTIQKRLRELSGRNVLTVAFTGSGKTAADYRKTFKRKFFLVPNKISAESFYRKNIFQNKNDLDTRSSNDYIGLLHGDINLYSENEDNGEHDFVLTLRDIDLSINFCKPCVIATVDQLLLSMFKFPGYEKIFAAVKNASITVDEVHLLEPKMFLILIYFMQFACKYLDVDFHLMTATLPKSYKEQMINKGIIFQEESNENVTDKGEIVFIESNKEEEICEGKDVKVSFIKEKEIKSIVEDALENKQKILIIKNTIDSVNRTYEFLKENLSDKYGGVDIDVLHSRFKFKDKKEKYSKILNGEGDIWISTQSVEISLDLDFNIIISDLATMDSLIQRMGRCNRNNKYEYGNFYILPSEDKIYDNKLKNTTKNILKDILKTNSIFTMGIRKTILDDYYDNSVVKKYFEENFISCDKEIKNIYGINKEIFDGLDLIFNFEPYKNIVDSKKEAAKIFRDVDVSYKIILEEDFYKEDRELQQDSIQVSGFIFNRLYYYGLISKVEGYMVLKSSSKFEYNSTVGLILK
>NC_009089.1|WP_011861557.1|2828282_2829080_-|CRISPR-associated-protein-Cas5
MKVLQCKLKQPTAHYRDPKVFQNEYISTLNLPSKTTIMGMITYLCDRRLNSDIDIGIIGTHHHRELEFSRGENIDFWNEYTNMRKGKDKEKFLLQGNYYDYYKEHKAQNSILNYEVLKEVELTIFISCKDDEELEFIRKKLESPCKYANLGRKEDFVIPSEKGCFVKEVELKEVIPMNTRDAIKENIKLKNTYVRVDLRDKENVETIINQGVLIALPYKYKDLEANRDDRVYEFCHYIYVDNDGIYPKNIKVNVCIDTKEVFTWL
>NC_009089.1|WP_011861558.1|2829095_2830112_-|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MNEKRVKGVTLTILTESPVPLSYDQGYGNYTPIKKEQYRDKVHAKTSIATITYDLRRILHQEYGWNLSNIVFGKKGNIYPSIKKNVGCVDENGLETDVFGYLIPLKEKGSISKASPLRIIPFRSLNSYRGSTQLITNRGFLSSEFGRKYYDEREENEVLRDENFPTTQALAIEETLSDYYVYTITLELDRIGVVEVEEDGKLLLPEERKFMSKELREKAVKDILDAITVFTRNIKHSSVLLKPLAVMGGAFDKVVPFFWDDVDYNADSGEINLEGVIETIESYSLKESNTILAINDRLKISNKKELNKFNLSKYPVKEIKNLADRLEIGEDNMWYLKE
>NC_009089.1|WP_011861559.1|2830131_2831607_-|hypothetical-protein
MREIKAKFYRSGDIVRDIGIVYFCELLMDLKNELEKNDYKLKFTCELNRNYLSLESAEYIDPKYISDYILENQLFKVFKNGKKETLEKIFSNIDNLTYVNFIEELDKSSATEKQKEGIKKDFKNRRFPYVRNSGKYGLNTSLENMETNVKRIVDIVIKSNIEIDEIDKLDLKQYEEKDSVCNVCNINKTTKLDIDLRERKDSKYNFLFRGAEKSGFKRSGQVESNICFECEFFNLMCLLYINLKRPMVFAYTNDLRELAFLNHKIMLKRKMYSDKSFYKKLLHEKISSIRLYRIDIDTNKGIILKFDSIIEYKELLKKIELIDIIDNYNFSREPMNTRNLGKKMINNGNLSNLKELLLDNISVLRQLTGTSREMDFVSSSYNIGLYIKFCWIVDGREEYKMKNYIESNLIYSRVGKDLFNKMTDESRRKNFSMKVIQLLKSNDRTQLFQTIMHVLVSNGILIGEGFVEGLMQSSELELNTNVGLFIQEIMK
>NC_009089.1|WP_011861560.1|2831611_2832349_-|CRISPR-associated-endoribonuclease-Cas6
MSRISIFMESCNGKFPNENSMLSVSFIKNILNAENKDFAKNIFNYGEERKNNKQIKDINTAIYIPNLIRSKNELLVDGDIIFNISFYNYSMFSKLYNGILKVKELEYKGYRFKIKNIKIHKEHEIKENGVIFKTMSPIIVKNKEGKYLDVEDSNYIECLNYIANLTLESIRGSGLRKPLEFIPLNFKKRVLKEKIRGFKEREFYYINAYAGTFFLKGNMEDLNALYKMGIGYRRTENAGMVDILK
>NC_009089.1|WP_153309814.1|2832449_2832626_-|hypothetical-protein
MNLNRIKEIIKKGLKRFMKVVVNLFCNKLFHRMLYIISISVVVKITMDINLYISILKY
>NC_009089.1|WP_011861561.1|2833084_2834194_+|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC
MSEVILKNISKLYSNGFNAVKNINIDIKDKEFIVLVGPSGCGKSTTLRMIAGLEEISEGELYIGDKLVNDIEPKDRDIAMVFQNYALYPHLSVYENMAFALKLRKLPKDEIDKKVKEAAKILDLLPLLNKKPKTLSGGQRQRVALGRAIVRNPKVFLMDEPLSNLDAKLRTAMRTEITKLHQQLGTTFIYVTHDQVEAMTMADRIVVMKDGVVQQIATPQDVYDYPANIFVAGFIGAPQMNFIDVILIEENDEIYAQNEHIKLKLNKEKHYDLIKDNYINNEVVIGIRPEDIHVEDTFIKSNPDTCFKSRIEIKELMGAETYAHLKLGENTITIRFDSKNRINVGDDLILSVDNSRVHIFDKETTLAIR
>NC_009089.1|WP_011861562.1|2834223_2834991_+|helix-turn-helix-domain-containing-protein
MEELKDFLERQLNKKINIYPYENQKLDASSHLVTFNNAIYVIDFLDKNNLDNLKGNFYLIYQSHIDFEYLKNIFYNLFEDINIIQHNGFFIVNSKYNLDINVTTQNIIETETYQSTYIFYLGELDSKADFNFRLQLCSDLLPHIIKDNAENKFLNLFDLIRYKTLDLINEDNILNKLIDFNKIKSIDEELLYTGIKFINNDLNISKTSTSMFLHRNTLVYRLEKINEILGFDLKNFENAMIFYLSVKSYFLYKKI
>NC_009089.1|WP_011861563.1|2835178_2836552_-|MFS-transporter
MGKTNARRTLFLIAIGSGTMLNPLNSSMISLALHSIQNDFHISFTTVSWIVSAFYLASAIAQPVSGKIGDLIGRKVLFLSGLMLVILSASIVPLVQSFFILIFIRVIQAIGTSTLYPSGVALIQNNIKERQSSALAVLTIFASTTAGLGPTLGGLLLDLGGWHAIFLVNIPVVLVSICLGYFLFPKEVKEKKSIKETLKNVLSRLDIIGILLFSIAMIFILLFLLSMKESFNLEQLVFGIILMCLFIWHELRTKLPFIDIKLFVSNPKLSKVYLQFIILNFFNYILFFGLPSYFQDALHYSAKSTGLFMLFMSGIGIFISPLTGKWIDKSGTRFPLVTSSIFMFISAVLLSVVFINIPVIGKGIILSLAGISYGVGNVALQSSMFEESPRDSIGTASGLFQTSRYLGSILATVLLGMVFEVNITSEQFQILGYVMVVLGTISFLLNFILKKELRKVE
>NC_009089.1|WP_003416574.1|2836587_2837523_-|ROK-family-protein
MYYIGVDIGGTGIQAGVVDNYGKIIFRSECKTVIEKGFEGILNDIKIMIYKLLEDNKLTMSDIKSIGFGVPGFINKEGLVTCVNLKWNKKAFNKELKRRFPDVEIHGENDATVAALGEAKFGSMKGANVGVLYTLGTGVGGGIVINQKVFSGAHGLGSEIGHQIIGENYFNCNCGNNGCVETFCSATAIIKYSQKLIEEGEKSRILDLAEGNLENVNAKMVFDAYRENDLVAIKVINRFKEYLAKTFANTINSLDPEIISIGGGISKSSDIILDGIEDLVRKFVLYKTEDIATITCATLGSDAGIIGAAFL

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Crispr_ID: NC_009089_13

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_13

2907464-2907889

Orphan

I-A

Consensus_repeat	Method
GTTTTATATTAACTATATGGAATGTAAAT	PILER-CR
ATTTACATTCCATATAGTTAATATAAAAC	CRISPRCasFinder
ATTTACATTCCATATAGTTAATATAAAAC	CRT

6 spacers

The CRISPR arrays of NC_009089_13

>merge|NC_009089|13|2907464-2907889|PILER-CR,CRISPRCasFinder,CRT
ATTTACATTCCATATAGTTAATATAAAACTTGTGTTTATTGTGATAGTGCCGAACAGGTGTTAATACGATTTACATTCCATATAGTTAATATAAAACTATACTTTAATACGTCAAATTAGACTTGACCTAAACAAATTTACATTCCATATAGTTAATATAAAACTTTTTCTGATGTTCCTAAGTCTGCTACTTCTATAGCATTTACATTCCATATAGTTAATATAAAACTTTTTGCTCTATATCGCGTTAGGCAAATACAAGGATAATTTACATTCCATATAGTTAATATAAAACAACAATAAAAGTCAATTAGAAATGTTTATGGAAAACAATTTACATTCCATATAGTTAATATAAAACTATTCCCGAAACTGAAAGAAATCAATGGACACCTTTATTTACATTCCATATAGTTAATATAAAAC

>NC_009089|13|10|2907464-2907889|PILER-CR
ATTTACATTCCATATAGTTAATATAAAAC	TTGTGTTTATTGTGATAGTGCCGAACAGGTGTTAATACG
ATTTACATTCCATATAGTTAATATAAAAC	TATACTTTAATACGTCAAATTAGACTTGACCTAAACAA
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTCTGATGTTCCTAAGTCTGCTACTTCTATAGC
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTGCTCTATATCGCGTTAGGCAAATACAAGGATA
ATTTACATTCCATATAGTTAATATAAAAC	AACAATAAAAGTCAATTAGAAATGTTTATGGAAAACA
ATTTACATTCCATATAGTTAATATAAAAC	TATTCCCGAAACTGAAAGAAATCAATGGACACCTTT
ATTTACATTCCATATAGTTAATATAAAAC

>NC_009089|13|11|2907464-2907889|CRISPRCasFinder
ATTTACATTCCATATAGTTAATATAAAAC	TTGTGTTTATTGTGATAGTGCCGAACAGGTGTTAATACG
ATTTACATTCCATATAGTTAATATAAAAC	TATACTTTAATACGTCAAATTAGACTTGACCTAAACAA
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTCTGATGTTCCTAAGTCTGCTACTTCTATAGC
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTGCTCTATATCGCGTTAGGCAAATACAAGGATA
ATTTACATTCCATATAGTTAATATAAAAC	AACAATAAAAGTCAATTAGAAATGTTTATGGAAAACA
ATTTACATTCCATATAGTTAATATAAAAC	TATTCCCGAAACTGAAAGAAATCAATGGACACCTTT
ATTTACATTCCATATAGTTAATATAAAAC

>NC_009089|13|7|2907464-2907889|CRT
ATTTACATTCCATATAGTTAATATAAAAC	TTGTGTTTATTGTGATAGTGCCGAACAGGTGTTAATACG
ATTTACATTCCATATAGTTAATATAAAAC	TATACTTTAATACGTCAAATTAGACTTGACCTAAACAA
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTCTGATGTTCCTAAGTCTGCTACTTCTATAGC
ATTTACATTCCATATAGTTAATATAAAAC	TTTTTGCTCTATATCGCGTTAGGCAAATACAAGGATA
ATTTACATTCCATATAGTTAATATAAAAC	AACAATAAAAGTCAATTAGAAATGTTTATGGAAAACA
ATTTACATTCCATATAGTTAATATAAAAC	TATTCCCGAAACTGAAAGAAATCAATGGACACCTTT
ATTTACATTCCATATAGTTAATATAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861577.1\|2906615_2906999_-\|transcriptional-regulator	unknown	unknown	gnl\|CDD\|367747
NC_009089.1\|WP_004454813.1\|2903693_2905322_+\|aspartate-4-decarboxylase	unknown	unknown	gnl\|CDD\|163513
NC_009089.1\|WP_009890721.1\|2901817_2903035_-\|threonine-ammonia-lyase	unknown	unknown	gnl\|CDD\|236182
NC_009089.1\|WP_004454825.1\|2918011_2918650_+\|recombination-regulator-RecX	unknown	unknown	gnl\|CDD\|234646
NC_009089.1\|WP_009890719.1\|2898139_2899690_-\|PTS-transporter-subunit-EIIC	unknown	unknown	gnl\|CDD\|273925
NC_009089.1\|WP_003416411.1\|2917046_2917736_-\|nicotinate-nucleotide-adenylyltransferase	unknown	unknown	gnl\|CDD\|234611
NC_009089.1\|WP_009897697.1\|2895801_2896560_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225080
NC_009089.1\|WP_003431027.1\|2899740_2900556_-\|PRD-domain-containing-protein	unknown	unknown	gnl\|CDD\|170086
NC_009089.1\|WP_011861579.1\|2910275_2911394_+\|site-specific-integrase	unknown	unknown	gnl\|CDD\|271189
NC_009089.1\|WP_003416416.1\|2916006_2916357_-\|ribosome-silencing-factor	unknown	unknown	gnl\|CDD\|376779
NC_009089.1\|WP_011861576.1\|2896690_2898043_-\|6-phospho-alpha-glucosidase	unknown	unknown	gnl\|CDD\|133434
NC_009089.1\|WP_003416451.1\|2901342_2901723_-\|RidA-family-protein	unknown	unknown	gnl\|CDD\|129116
NC_009089.1\|WP_011861581.1\|2918802_2920806_+\|1,4-alpha-glucan-branching-protein	unknown	unknown	gnl\|CDD\|215246
NC_009089.1\|WP_011861578.1\|2908691_2910062_-\|cell-wall-binding-protein-Cwp29	unknown	unknown	gnl\|CDD\|380277
NC_009089.1\|WP_009897702.1\|2900576_2901059_-\|PTS-glucose-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|376324
NC_009089.1\|WP_003431031.1\|2905442_2906438_+\|asparaginase	unknown	unknown	gnl\|CDD\|199208
NC_009089.1\|WP_003416419.1\|2913232_2915653_-\|leucine--tRNA-ligase	unknown	unknown	gnl\|CDD\|234743
NC_009089.1\|WP_003431048.1\|2916473_2917046_-\|HD-domain-containing-protein	unknown	unknown	gnl\|CDD\|224627
NC_009089.1\|WP_011861580.1\|2911710_2912379_-\|VanZ-family-protein	unknown	unknown	gnl\|CDD\|377417
NC_009089.1\|WP_004454815.1\|2908174_2908333_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861577.1\|2906615_2906999_-\|transcriptional-regulator	gnl\|CDD\|367747	pfam03965, Penicillinase_R, Penicillinase repressor. The penicillinase repressor negatively regulates expression of the penicillinase gene. The N-terminal region of this protein is involved in operator recognition, while the C-terminal is responsible for dimerization of the protein.	6.20032e-19
NC_009089.1\|WP_004454813.1\|2903693_2905322_+\|aspartate-4-decarboxylase	gnl\|CDD\|163513	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase. This enzyme, aspartate 4-decarboxylase (EC 4.1.1.12), removes the side-chain carboxylate from L-aspartate, converting it to L-alanine plus carbon dioxide. It is a PLP-dependent enzyme, homologous to aspartate aminotransferase (EC 2.6.1.1). [Energy metabolism, Amino acids and amines].	0
NC_009089.1\|WP_009890721.1\|2901817_2903035_-\|threonine-ammonia-lyase	gnl\|CDD\|236182	PRK08198, PRK08198, threonine dehydratase; Provisional.	0
NC_009089.1\|WP_004454825.1\|2918011_2918650_+\|recombination-regulator-RecX	gnl\|CDD\|234646	PRK00117, recX, recombination regulator RecX; Reviewed.	3.67554e-47
NC_009089.1\|WP_009890719.1\|2898139_2899690_-\|PTS-transporter-subunit-EIIC	gnl\|CDD\|273925	TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific IIBC component. This model represents a family of fused PTS enzyme II B and C domains. A gene from Clostridium has been partially characterized as a maltose transporter, while genes from Fusobacterium and Klebsiella have been proposed to transport the five non-standard isomers of sucrose. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids].	1.41453e-101
NC_009089.1\|WP_003416411.1\|2917046_2917736_-\|nicotinate-nucleotide-adenylyltransferase	gnl\|CDD\|234611	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase.	9.36329e-79
NC_009089.1\|WP_011861580.1\|2911710_2912379_-\|VanZ-family-protein	gnl\|CDD\|377417	pfam04892, VanZ, VanZ like family. This family contains several examples of the VanZ protein, but also contains examples of phosphotransbutyrylases.	3.2707e-18
NC_009089.1\|WP_003431027.1\|2899740_2900556_-\|PRD-domain-containing-protein	gnl\|CDD\|170086	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional.	2.51602e-51
NC_009089.1\|WP_011861579.1\|2910275_2911394_+\|site-specific-integrase	gnl\|CDD\|271189	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons. This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.	8.44818e-44
NC_009089.1\|WP_003416416.1\|2916006_2916357_-\|ribosome-silencing-factor	gnl\|CDD\|376779	pfam02410, RsfS, Ribosomal silencing factor during starvation. This family is expressed by almost all bacterial and eukaryotic genomes but not by archaea. Its function is to down-regulate protein synthesis under conditions of nutrient shortage, and it does this by binding to protein L14 of the large ribosomal subunit, thus acting as a ribosomal silencing factor (RsfS) by blocking the joining of the ribosomal subunits. This family is structurally homologous to nucleotidyltransferases.	7.43119e-49
NC_009089.1\|WP_011861576.1\|2896690_2898043_-\|6-phospho-alpha-glucosidase	gnl\|CDD\|133434	cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases. Bacillus subtilis GlvA and Clostridium acetobutylicum pagL are 6-phospho-alpha-glucosidase, catalyzing the hydrolysis of alpha-glucopyranoside bonds to release glucose from oligosaccharides. The substrate specificities of other members of this subgroup are unknown. Some bacteria simultaneously translocate and phosphorylate disaccharides via the phosphoenolpyruvate-dependent phosphotransferase system (PEP_PTS). After translocation, these phospho-disaccharides may be hydrolyzed by the GH4 glycoside hydrolases, which include 6-phospho-beta-glucosidases, 6-phospho-alpha-glucosidases, alpha-glucosidases/alpha-glucuronidases (only from Thermotoga), and alpha-galactosidases. Members of this subfamily are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.	0
NC_009089.1\|WP_003416451.1\|2901342_2901723_-\|RidA-family-protein	gnl\|CDD\|129116	TIGR00004, RutC_family_protein, reactive intermediate/imine deaminase. This protein was described initially as an inhibitor of protein synthesis intiation, then as an endoribonuclease active on single-stranded mRNA, endoribonuclease L-PSP. Members of this family, conserved in all domains of life and often with several members per bacterial genome, appear to catalyze a reaction that minimizes toxic by-products from reactions catalyzed by pyridoxal phosphate-dependent enzymes. [Cellular processes, Other].	6.43782e-69
NC_009089.1\|WP_011861581.1\|2918802_2920806_+\|1,4-alpha-glucan-branching-protein	gnl\|CDD\|215246	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme.	0
NC_009089.1\|WP_011861578.1\|2908691_2910062_-\|cell-wall-binding-protein-Cwp29	gnl\|CDD\|380277	NF033435, S-layer_Clost, S-layer protein SlpA. In Clostridiodes difficile, the S-layer protein precursor, SlpA, is one member of a large paralogous family of protein that share several cell wall-binding repeats. SlpA is cleaved into a larger and smaller protein. The S-layer protein itself is important to adhesion, and portions of it are highly variable, and then N-terminal and C-terminal are well-conserved.	1.86045e-19
NC_009089.1\|WP_009897702.1\|2900576_2901059_-\|PTS-glucose-transporter-subunit-IIA	gnl\|CDD\|376324	pfam00358, PTS_EIIA_1, phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1.	7.48839e-57
NC_009089.1\|WP_003431031.1\|2905442_2906438_+\|asparaginase	gnl\|CDD\|199208	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase. Asparaginases (amidohydrolases, E.C. 3.5.1.1) are enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases. This model represents type II L-asparaginases, which tend to be highly specific for asparagine and localized to the periplasm. They are potent antileukemic agents and have been used in the treatment of acute lymphoblastic leukemia (ALL), but not without severe side effects. Tumor cells appear to have a heightened dependence on exogenous L-aspartate, and depleting their surroundings of L-aspartate may starve cancerous ALL cells. Type II L-asparaginase acts as a tetramer, which is actually a dimer of two tightly bound dimers. A conserved threonine residue is thought to supply the nucleophile hydroxy-group that attacks the amide bond. Many bacterial L-asparaginases have both L-asparagine and L-glutamine hydrolysis activities, to a different degree, and some of them are annotated as asparaginase/glutaminase.	8.27962e-141
NC_009089.1\|WP_003416419.1\|2913232_2915653_-\|leucine--tRNA-ligase	gnl\|CDD\|234743	PRK00390, leuS, leucyl-tRNA synthetase; Validated.	0
NC_009089.1\|WP_003431048.1\|2916473_2917046_-\|HD-domain-containing-protein	gnl\|CDD\|224627	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism].	4.17724e-52
NC_009089.1\|WP_009897697.1\|2895801_2896560_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|225080	COG2169, Ada, Adenosine deaminase [Nucleotide transport and metabolism].	6.0396e-15

>NC_009089.1|WP_011861577.1|2906615_2906999_-|transcriptional-regulator
MLNKKLPDAELKIMKYIWNTGYKTVISKDVADEIEKTYAWKHTTTITLLARLTKKGFFISQRIGKHVHYRVLIKEKEYLKIEGKRIFGGLHKNPLSELISKLHDGEEITEEKIIEIGNWIKSWKDED
>NC_009089.1|WP_003431031.1|2905442_2906438_+|asparaginase
MSIKKKVAIVFTGGTISMTVDDKVGAAIPTLSGEQILSMVTNIDKVADVEVFNFDEIPGPHITPYRMMELKNYVNDLLARKDITGVVITHGTDSLEETAYFLDLTIDNIKPVIVTGAMRSSSELGYDGSSNLSASVCTAVSKDAMGKGVLVVLNNEVLLASEATKTNTLSLNTFKSLTSGPLGIIDCNELVLTRDIVNRTIIDTDKVESKVALFKAYVGENADFIRFAVDSGYKGIVIEAMGRGNIPPQMLSGVEYAREKGLPVVIVSRCHSGRVFDSYGYFGSGRDLKNLGCIFGGDLPGQKARIKLILALGKTDNLDEIKDFFEKGIYC
>NC_009089.1|WP_004454813.1|2903693_2905322_+|aspartate-4-decarboxylase
MKNHTYKEIKNIYGKISPFEFKDKLIDIAKYTAKENNRELLDAGRGNPNWTCSTAREAFFTFGHFAITETRSNWDLGHLAGMPQKKGIKERFFKFINENIDMPGAYLARDIINFGINELGFDGDEFVHELADGIIGDNYPLPDRMLPHMEKIVHDYLVQEMKYDISGKYGDVEIFAVEGATAAMCYIFDSLMANELLKKGDTIALMTPIFTPYLEIPNLPRYDFKVVNINANEVDEKGAHTWQYTKKELEKLRDKSIKALFVVNPNNPASIAMDETSCNNLIDVIENYNKDLMIISDDVYGTFVEDFSSLMSKLPYNTVGVYSYSKYFGVTGWRLGTFALHKKNVFDKKINDLTGELKKSVDKRYSDMSLNPSSLSFMERVVADSRLVALNHTAGLSTPQQVQMAFFSAFALIDKVDAYKKLNMSICHRRQKLLFEALELPINENKNNAAYYTQFDIEEWAKLNYGEDLFKFISKTASPVDVLYKLANDYSVVLLSGNGFYGPEWSIRISLANLYDEAYTKIGKAIREILNGYIVEWQKIKK
>NC_009089.1|WP_009890721.1|2901817_2903035_-|threonine-ammonia-lyase
MMNVTLTDVKEARETIKNIVKRTDLLESVKLSEKTGANVFYKCENLQKTGSFKLRGACNKIASLTDEEKANGVIASSAGNHAQGVALGAKMTGIKSTIVMPATAPLAKVSATKGYGAEVVLNGAVYDDAYAKAVEIQKETGATFLHPFNDKYVIAGQGTISLEIFEQLDNKVDTILCPVGGGGIISGVAVAAKALNPNVKIVGVQTANIPSMKESIKNGKVTTAFNDTTIADGIAVKTPGDLTFEIINELVDEIVVVEETEIAESILFMMESQKIVSEGAGAVCTAAILSGKYVPAKDENVVCIISGGNIDINTLYRIIGVALAKEGRRYSFSTIMEDKPGNFAELTRIISENGGNILSANQGKLSAGEALGKQSAEFILETIDYDHIARIKKAIEEKGFKIIEL
>NC_009089.1|WP_003416451.1|2901342_2901723_-|RidA-family-protein
MKHEVIHTNDAPAALGPYSQAIKAGNLLFVSGQVPLVPETMEVVEGDVQAQTAQSLKNLKAILAESGADFSNVVKTTVFIKDMNEFGAINEVYAEYFGENKPARACVEVARLPKDVKVEIEVIAVL
>NC_009089.1|WP_009897702.1|2900576_2901059_-|PTS-glucose-transporter-subunit-IIA
MLNFFKKNKSYKLHAVVSGNSINIEKVNDSVFSKKLMGDGVAIIPNSDVVVAPCNGKVTVLTESKHAFGMVSDEGVEILVHIGIDTVSLQGEGFKNEVSQGDTVKKGSPIISFEREKINSQGIDCTTIIIVLNHSEFSEINCMVENEVVAGQDTVIEIMK
>NC_009089.1|WP_003431027.1|2899740_2900556_-|PRD-domain-containing-protein
MRVVKIFNNNALSTVTNDRKEAILLGLGIGFNKRPGDKVNEDKIEKIYYVQDHMQTKFLELLKNVSPEVMDASQQIISLIPGNEGKFNNKGILSLVEHISFAIDRMKNNVFLPNLMLLDIKMMYSKEFELGVKALEIIYRVCHIHLPEDEAGYIALHFVNLQSNDNLAYDTLKFVKGSIDLIKECYGLELDESSLSTLRFRTHLKFLAQRIFKNEICQDDKMIEMYDYLINNHPKNKEYLEKLNVYIEKEFRYKLDKPEKIYLLLHLTKIL
>NC_009089.1|WP_009890719.1|2898139_2899690_-|PTS-transporter-subunit-EIIC
MKEKLLGGLETFAKAMVQPLMYLSSAGILMVVGVLLTNDMLLGVLPFFKWEPIQIFGSLIYNCIMAIINNLAVIFAIGIPAALAKKEKHKAALIGFMSYIIYLTASNTMLTSLGQLAKESKMLGLIGTGQATILGIQVVDTSVFGGIILGCIAGYVFNRTSNKTFKGALQIYSGANFSFICMFFVSILIGVVSNFIWPLAQQGIASLANVIKDTGTFGLFLYGFLERILVPTGLHHLIYTPFQFSDLGGVLKVGADTVSGAYAIVMTEMNLPVERFSDSIYYMATGFTKMFGYIGIGAAFIYTAYKQNKKKVKATIIPLIITAVLASVTEPLDFMFVFCAPLLFFVHAVIAGLFIALLKIFDVTALCGGNLLVSIIMNTTVGVEKTHWPVMMILGLAQIIVYFVVFSFLIKKFNYKTPGREDESTATGEEQSKQLNLDAGIENIIDGLGGKENINTVENCITRLRVNVKDESKINEDIINLTPNSGIVRKGKDIQIIFGLHVHEVRRAVEDFLEAY
>NC_009089.1|WP_011861576.1|2896690_2898043_-|6-phospho-alpha-glucosidase
MIITIVGGGSTFTPGIVKSIALREKELELEEIRLFDIDKERQDKVAVVVNWILKEDVKTDVKLTVTNCEKEAYTDATFIFAQMRVGKYEMREQDEKIPLKYGCVGQETCGCGGMAYGLRTIQPMIKVIDDVEKYAKKDYWILNYSNPAAIVSEACRKLRPNARIINICDMPIAIIDMIAGSLNINDVHNIRYDYFGLNHFGWFTSIDYKHRDLMEEIKEYIKENKILLPKSYIENLNKSRSTGNRHAVSSWIHVWESVYTMLESFPKYLPNTYLTYYLLSKETVEHSNINCTRANEVMESREKDLFEGVRHYLETGEISEKAFYAGSHGDWISDLAVSIKNDTRSRFLVITENRGAIPNMPYDAMVEIPAYIGKDGPEVIARGPIPLFQQGLMMQQLNSEKLIVEAYIENSYEKALQAFTLNKTIPSMNVAKEILDEMIEVNKEYWPELR
>NC_009089.1|WP_009897697.1|2895801_2896560_-|helix-turn-helix-transcriptional-regulator
MNIINKIFWQEDRIGMITNNLEADTHSHCMLQLFLGIEDSIEITVNEKLVKCNCIIVDKNISHSFSARKKVYYSAIIEPTSIYAEQLTSKMNDFGYWICDNNGLEKLRQQGTFLIDNSSKEQYLRFMEMLNNYLNIPITLKHYDDRITELLNLLRTCNCDNHTISSFADKVSLSASRLSHLFKEQIGIPLKSYILFHQMECAFRELLSGKNVTEASMTAGFDTPSHFAGTVKRMMGMPVSLSLKDSEFLKVY
>NC_009089.1|WP_004454815.1|2908174_2908333_-|hypothetical-protein
MDNFLQGILASLSASLIVYIASKLFRKRKKPLKAATKSGWEFDLKIRFHKTK
>NC_009089.1|WP_011861578.1|2908691_2910062_-|cell-wall-binding-protein-Cwp29
MKLKKLLSLGLVSMFVAGFPISANALETIYTIQGKDKYETAALIADEQNYTTAILINADSTMADGLSASGLAGATNAPIFLTKKNNIPNATLKRVEKAKKVYIIGGESSIDKATETLLKDKGIEAKRLQGSDRIKTSYNVAKEINSINKVNKVILTNAFKGEPDAMSAAPVAVRDKAAIVLTDGKSVPFNTTGVESYVIGGTSSMSDKLVNDTNSTRLGGVDRYDTNKKIVNKFYNGAKEFYIASGTDLVYALVASPMAKNNPIVLVDIGSNKDILKNAAKVTGIGNLSDKIMLECENTINNISLPSSNKNIICGLKIDFDSNHIIWQDKGSYLECYDDNLEYYTEKYKDPTVPINIENTSTQNLDVTKLKVYGEANSTLYMGQYAKIKMDFNSFGVLKPGEKCTIYLDIISLDPSRSMTLTFSYVGDKENYKYEQGLVSRILFYNPDGEDFFEYK
>NC_009089.1|WP_011861579.1|2910275_2911394_+|site-specific-integrase
MNIKSAFIRKRGEKFYVYVEYIEETTGKIKQKSYGSYEKKKDAEKHLIEIKSTINNNKFVAPKDITFVERCYKYIDMNKNNWSPYTVTSTKSWVKNYIEPFFKNLKLTEVNPSSVQAFVNYNFNNSTFTSAKVRYSFLSSVIREAYRLREIQENSCDFIKLPSKEKYSTNEIYNREEVLLLIEKLLGNNIEIPILLMLLLGLRMGEATGLRWSDVDLDNNLINVNQILVYSNGKISFKEPKTPKSKRALSAPKELIEKLKIEKLRQSKLKLQGILENKNNLVCLNTNLNPFLPSSLRKTFHNFTKKNNLKKIRIHDLRHTSATLLLLGGTNMKVVSERLGHTDIKITMNRYSHVLKEMDKEASDNLSELLFK
>NC_009089.1|WP_011861580.1|2911710_2912379_-|VanZ-family-protein
METVTNNQSGVEIQLSLFEAIKDLLLINPIFLLGIILIGIFLVVIFKKNSDIPKVKTSILSLAMYYYLCLTLSHIVGIPTFGEYIRLSQLGETFFNPNINLIPFSDGFSLSFILNILLFVPLGFLCPLISKTFERLRNTFLIGFGLSLFIETIQLFTLHRATDIDDLLTNVIGTIIGYFCFKLIAKLRIVKPHSDDDSMEQDYTVCIPIAIIIVALILGFFS
>NC_009089.1|WP_003416419.1|2913232_2915653_-|leucine--tRNA-ligase
MSVYNFKEVESKWQKIWKDNNQYKMDTAQTEKPNYYTLEMFPYPSGKIHMGHVRNYSIGDVVARFKKMEGYNVLHPMGWDSFGLPAENAAIKHGIHPHKWTMENIEEMKEQLNLLGISYDWDKEVATSTPEYYRFTQEIFLKFLEHGLAYKKKSYVNWCPSCETVLANEQVVQGACERCKATVLKKDLEQWYFKTTEFAEELLNDLDTLDGWPEKVKTMQKNWIGKSTGADLVFDIDGTDKSMTVFTTRPDTTYGVTYMVLAPEHELVKELVAGTEYEADVEAFVQKMHTMTEIERTAADVEKEGMFIGRYVINPLNGKKVPLWIANYVLVEYGTGAIMAVPAHDERDRDFAEKYNLDIIDVITEDNKMINSEEFNGLDASEGFEGIIDKLEKEGRGKRTINYRLRDWLVSRQRYWGCPIPVVYCDECGIVPVKKEDLPVLLPTDVEFTGKGESPLTTSKQFMSTTCPHCGKPARREVDTMDTFVDSSWYFLRYVDSNNENEPFSKELVNRWHPVDQYIGGVEHAIMHLLYARWFVKAFKSMGMVDFNEPFKNLLTQGMVLMDGSKMSKSKGNTVSPMDIIDEYGADTARLFVLFAAPPERDLDWSEQGVDGCFRFLNRVYRLVDELADVVKKDVEFGELNSQDKDMRYTIHSTLKKVTADLSEKFGFNTAISALMELINDMYKYKELDNINEAVIKEGVQTIVTIIAPFAPHLGEELWTMIGKEGSVFDIDWPKYDEKALVKDEIEVVVQVNGKVRGKLTVNSNISKDEMEKVALEDEKIKGLVEGKTIVKVVAVPKKLVNIVVK
>NC_009089.1|WP_003416416.1|2916006_2916357_-|ribosome-silencing-factor
MTVEQMTKIAYDAIEDKLGQDTVIINIGKVSSLCDYFIITTASSQRQVKAIADNVEDELAKLGLEPRGKEGQGTQTWVLLDYGDIMVHVFNEENRGFYNLEKLWKDAPYIDIDTLA
>NC_009089.1|WP_003431048.1|2916473_2917046_-|HD-domain-containing-protein
MNLENINQRLNQMLPVGRLSHSKNVAKCAEKLCEIYGCDKEKAYLAGMIHDCAKYLSDKEIEDYVNKYEIYLDPIEDGNRSLSHSVIGAYICEYEFEVEDEDIINAIKYHTTGREDMSLLEKIIYIADLIEEGRKFPVVDTLRELAYGGKLDEALLTSFNNTLMFVINKKEEIHPRTVMARNYLIKEKLL
>NC_009089.1|WP_003416411.1|2917046_2917736_-|nicotinate-nucleotide-adenylyltransferase
MRSENLVKMAELKNTEKLEKFNRHKGKIKIGILGGTFDPIHYAHLATAEFIRDKYDIDKIIFIPSGNPPHKLCITTDKYDRYNMTLLATESNEDFLVSKVEIERKKRTYTIDTLKYLKKKYKNADIYFITGADAICSVEEWKDVKKNFELATFIAATRPGISLLRSQETIEKLTKKYNADIITVYVPSLDISSTYIREQLNEGKSIRYLVPENVENYLYENKLYQYGDD
>NC_009089.1|WP_004454825.1|2918011_2918650_+|recombination-regulator-RecX
MGIITKIEQQKRNDDRVNIYVDDKFFIAIFKELVYTFNLKKGNEINEEELKPILDDEMYIKAKNKALNILSHADQSEKKLKEKLSSEFDENIIERVIDFLKSYNLVNDSVLAQKIVNTNVNLNKCGKNRIKQNLYNKGINRSTINEAVSELDKDTEFENAMYLAKKRYERVKKEDKKKIYQKISQHLSYKGFDYDIIKRVLNKLLNFDEYDI
>NC_009089.1|WP_011861581.1|2918802_2920806_+|1,4-alpha-glucan-branching-protein
MKSEKRFKILDIDVYLQPFESDIKKRMKHYEDMKSKTLKNYKDFSSFANAHLYYGFHQTNDGFFYREWAPNADSLSLIGDFNNWNRKSHPLRKIGSGNWEIFIPGQNSLPHKSEIKVQVTANGKTFDRIPLYIKRVIQKDFGGFNGQIWQPKTPFIWTDNNFDLKNITSPLIYECHIGMSTESESIGTYNEFTEKILPKIKKAGYNTIQLMAIMEHPYYASFGYQVSNFYAISSRFGTPEDLKNLINTAHSMGIAVLLDLVHSHAVKNTLEGINEFDGSEHQFFHSGSKGNHPAWGTKLFNYGKPEVIHFLLSNIKFWLNEYHFDGFRFDGVTSMLYHNHGLGVSFDSYEKYFSMNTDIEAITYLQFANELIKEIKPNSISIAEDMSGMPGMCIPIKDGGIGFDYRLAMGVPDFWIKTISNLSDEDWDLGKMWYELTTRRPGEKNIGYCESHDQALVGDKTIIFWLADKEMYWNMEINSNNHVINRAISLIKLIKLITFSLAGEGYLNFMGNEFGHPEWIDFPREGNNWSYKYARRQWSLSEDNNLKYKQLLNFDKSMLELTKYSDIFIQNSHELIHMDNDKKILVYSKGKYLFIFNFHPNLIQSVDISKFQNTNYKTILNTDMVEFGGNTKKENLRDYDVYFSSTPPSSKMPIASRTAIVLLDNGI

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Crispr_ID: NC_009089_14

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_14

3139477-3139802

Orphan

Consensus_repeat	Method
TTACCATCTATTTGTTGCCATCCTGT	CRISPRCasFinder

5 spacers

The CRISPR arrays of NC_009089_14

>merge|NC_009089|14|3139477-3139802|CRISPRCasFinder
TTCCCATCTATTTTTTGAGAACCAGTTAGCATCTTTCCATATTTGTCTAAATAGTAAGACTTACCATCTATTTGTTGCCATCCTGTCTGCATTATTCCTGTTTTGTCAAAGTAATACTTATTACCATCTATTTCTTGCCATCCTGTTACTGCTAAACCATCAGATCCTAGATAGTATTTCTTTCCATTCTTTTCTTGCCATCCTGTTTGCATTACTCCATCTGAGTTAAAGTAATAAGTTTTTCCGTCTATTACTTTCCATCCAGATACTCTTGCTCCATCAGTTCCTAAATAATATTTTTTGTTATTAATTGTTTTCCATCCTGT

>NC_009089|14|12|3139477-3139802|CRISPRCasFinder
TTCCCATCTATTTTTTGAGAACCAGT	TAGCATCTTTCCATATTTGTCTAAATAGTAAGAC
TTACCATCTATTTGTTGCCATCCTGT	CTGCATTATTCCTGTTTTGTCAAAGTAATACTTA
TTACCATCTATTTCTTGCCATCCTGT	TACTGCTAAACCATCAGATCCTAGATAGTATTTC
TTTCCATTCTTTTCTTGCCATCCTGT	TTGCATTACTCCATCTGAGTTAAAGTAATAAGTT
TTTCCGTCTATTACTTTCCATCCAGA	TACTCTTGCTCCATCAGTTCCTAAATAATATTTT
TTGTTATTAATTGTTTTCCATCCTGT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_004455025.1\|3142665_3142986_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861658.1\|3145089_3147633_-\|SPOR-domain-containing-protein	unknown	unknown	gnl\|CDD\|173412
NC_009089.1\|WP_162835937.1\|3132201_3133071_-\|shikimate-dehydrogenase	unknown	unknown	gnl\|CDD\|183585
NC_009089.1\|WP_011861657.1\|3142975_3144967_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_016728660.1\|3128683_3130549_-\|restriction-endonuclease	unknown	unknown	gnl\|CDD\|214906
NC_009089.1\|WP_009897898.1\|3154446_3155385_+\|delta-lactam-biosynthetic-de-N-acetylase	unknown	unknown	gnl\|CDD\|200572
NC_009089.1\|WP_009890955.1\|3136408_3137290_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176125
NC_009089.1\|WP_011861656.1\|3140561_3141575_-\|UDP-glucose-4-epimerase-GalE	unknown	unknown	gnl\|CDD\|177883
NC_009089.1\|WP_004455018.1\|3133146_3135069_-\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|274912
NC_009089.1\|WP_003426384.1\|3158673_3159378_-\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_009089.1\|WP_004455016.1\|3130784_3132002_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340954
NC_009089.1\|WP_009893715.1\|3137497_3138307_-\|DUF3800-domain-containing-protein	unknown	unknown	gnl\|CDD\|173777
NC_009089.1\|WP_004455019.1\|3135147_3135996_-\|sugar-phosphate-isomerase/epimerase	unknown	unknown	gnl\|CDD\|224007
NC_009089.1\|WP_009903304.1\|3148376_3149054_+\|sortase-SrtB	unknown	unknown	gnl\|CDD\|320675
NC_009089.1\|WP_004454160.1\|3157358_3158681_-\|HAMP-domain-containing-histidine-kinase	unknown	unknown	gnl\|CDD\|223715
NC_009089.1\|WP_003421552.1\|3125619_3126963_+\|NCS2-family-permease	unknown	unknown	gnl\|CDD\|225161
NC_009089.1\|WP_011861659.1\|3155756_3157130_-\|transporter	unknown	unknown	unknown
NC_009089.1\|WP_011861651.1\|3124463_3125117_-\|pentapeptide-repeat-containing-protein	unknown	unknown	gnl\|CDD\|224276
NC_009089.1\|WP_004455014.1\|3127141_3128506_+\|amidohydrolase	unknown	unknown	gnl\|CDD\|238623
NC_009089.1\|WP_014466379.1\|3141598_3142468_-\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	unknown	unknown	gnl\|CDD\|224131

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861658.1\|3145089_3147633_-\|SPOR-domain-containing-protein	gnl\|CDD\|173412	PTZ00121, PTZ00121, MAEBL; Provisional.	0.000124964
NC_009089.1\|WP_162835937.1\|3132201_3133071_-\|shikimate-dehydrogenase	gnl\|CDD\|183585	PRK12548, PRK12548, shikimate dehydrogenase.	0
NC_009089.1\|WP_016728660.1\|3128683_3130549_-\|restriction-endonuclease	gnl\|CDD\|214906	smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p. HIRAN is found as a standalone protein in several bacteria and prophages, or fused to other catalytic domains, such as a nuclease of the restriction endonuclease fold and TDP1-like DNA phosphoesterases, in the eukaryotes. It has been predicted that this protein functions as a DNA-binding domain that probably recognises features associated with damaged DNA or stalled replication forks.	1.14983e-17
NC_009089.1\|WP_009897898.1\|3154446_3155385_+\|delta-lactam-biosynthetic-de-N-acetylase	gnl\|CDD\|200572	cd10948, CE4_BsPdaA_like, Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs. The Bacillus subtilis genome contains six polysaccharide deacetylase gene homologs: pdaA, pdaB (previously known as ybaN), yheN, yjeA, yxkH and ylxY. This family is represented by Bacillus subtilis pdaA gene encoding polysaccharide deacetylase BsPdaA, which is a member of the carbohydrate esterase 4 (CE4) superfamily. BsPdaA deacetylates peptidoglycan N-acetylmuramic acid (MurNAc) residues to facilitate the formation of muramic delta-lactam, which is required for recognition of germination lytic enzymes. BsPdaA deficiency leads to the absence of muramic delta-lactam residues in the spore cortex. Like other CE4 esterases, BsPdaA consists of a single catalytic NodB homology domain that appears to adopt a deformed (beta/alpha)8 barrel fold with a putative substrate binding groove harboring the majority of the conserved residues. It utilizes a general acid/base catalytic mechanism involving a tetrahedral transition intermediate, where a water molecule functions as the nucleophile tightly associated to the zinc cofactor.	1.67913e-111
NC_009089.1\|WP_009890955.1\|3136408_3137290_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|176125	cd08434, PBP2_GltC_like, The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	2.24492e-91
NC_009089.1\|WP_011861656.1\|3140561_3141575_-\|UDP-glucose-4-epimerase-GalE	gnl\|CDD\|177883	PLN02240, PLN02240, UDP-glucose 4-epimerase.	0
NC_009089.1\|WP_004455018.1\|3133146_3135069_-\|FAD-dependent-oxidoreductase	gnl\|CDD\|274912	TIGR03997, NADH:flavin_oxidoreductase, mycofactocin system FadH/OYE family oxidoreductase 2. The yeast protein called old yellow enzyme and FadH from Escherichia coli (2,4-dienoyl CoA reductase) are enzymes with 4Fe-4S, FMN, and FAD prosthetic groups, and interact with NADPH as well as substrate. Members of this related protein family occur in the vicinity of the putative mycofactocin biosynthesis operon in a number of Actinobacteria such as Frankia sp. and Rhodococcus sp., in Pelotomaculum thermopropionicum SI (Firmicutes), and in Geobacter uraniireducens Rf4 (Deltaproteobacteria). The function of this oxidoreductase is unknown.	1.73089e-143
NC_009089.1\|WP_003426384.1\|3158673_3159378_-\|response-regulator-transcription-factor	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	3.65233e-79
NC_009089.1\|WP_004455016.1\|3130784_3132002_-\|MFS-transporter	gnl\|CDD\|340954	cd17396, MFS_YdiM_like, Inner membrane transport protein YdiM and similar proteins of the Major Facilitator Superfamily of transporters. This subfamily contains Escherichia coli inner membrane transport proteins YdiM and YdiN, which belong to the bacterial fucose permease, eukaryotic Major facilitator superfamily domain-containing protein 4 (FucP/MFSD4) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	2.54868e-158
NC_009089.1\|WP_009893715.1\|3137497_3138307_-\|DUF3800-domain-containing-protein	gnl\|CDD\|173777	cd01027, TOPRIM_RNase_M5_like, TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.	0.000525104
NC_009089.1\|WP_004455019.1\|3135147_3135996_-\|sugar-phosphate-isomerase/epimerase	gnl\|CDD\|224007	COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism].	3.26864e-21
NC_009089.1\|WP_009903304.1\|3148376_3149054_+\|sortase-SrtB	gnl\|CDD\|320675	cd05826, Sortase_B, Sortase domain found in class B sortases. Class B sortases are membrane-bound cysteine transpeptidases broadly distributed in Gram-positive bacteria (mainly present in Firmicutes and Actinobacteria). They can have radically distinct functions. Some members of this group attach haemoproteins to the peptidoglycan of the cell wall, while others assemble pili, which are multi-subunit hair-like fibres that extend from the cell surface to promote microbial adhesion and biofilm formation. In transpeptidation reaction, the surface protein substrate is cleaved at a conserved cell wall-sorting signal (Class B sortases normally recognize the consensus NP[Q/K][T/S][N/G/S][D/A] motif), and covalently linked to peptidoglycan for display on the bacterial surface. The prototypical sortase B protein from Staphylococcus aureus (named Sa-SrtB) cleaves surface protein precursors between threonine and asparagine at a conserved NPQTN motif with subsequent covalent linkage to pentaglycine cross-bridges. It is required for anchoring the heme-iron binding surface protein IsdC to the cell wall envelope. SrtB contains an N-terminal hydrophobic region that functions as a signal peptide/transmembrane domain. At the C terminus, it contains an essential cysteine residue within the catalytic TLXTC signature sequence, where X is usually a serine. Genes encoding SrtB and its targets are generally clustered in the same locus. The prototypical class B sortase involved in pilus biogenesis is pilus-specific sortase C2 from Streptococcus pyogenes (named Sp-SrtC2) that anchors a surface protein containing a QVPTGV motif to the cell wall, as well as polymerizes the major pilin subunit Tee3/FctA and attaches the minor tip pilin Cpa. The linkage of Cpa to Tee3 by SrtC2 requires the VPPTG motif in the cell wall-sorting signal of Cpa. The family also includes SrtB enzymes from Bacillus anthracis (named Ba-SrtB) and Clostridium difficile (named Cd-SrtB). Ba-SrtB is thought to recognize the NPKTG motif, and attaches surface proteins to meso-diaminopimelic acid (mDAP) cross-bridges. Cd-SrtB does not play an essential role in pathogenesis. It cleaves short [SP]PXTG motif-containing peptides between the threonine and glycine residues and then covalently anchors the threonine residue to a nucleophile such as glycine or mDAP, but not to the peptidoglycan of C. difficile, suggesting a novel association of sortase activity with cyclic diGMP (c-diGMP)-mediated regulation to control levels of cell wall anchoring and secretion of putative adhesion molecules.	5.3678e-78
NC_009089.1\|WP_004454160.1\|3157358_3158681_-\|HAMP-domain-containing-histidine-kinase	gnl\|CDD\|223715	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms].	6.0866e-23
NC_009089.1\|WP_003421552.1\|3125619_3126963_+\|NCS2-family-permease	gnl\|CDD\|225161	COG2252, COG2252, Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism].	1.71633e-141
NC_009089.1\|WP_011861651.1\|3124463_3125117_-\|pentapeptide-repeat-containing-protein	gnl\|CDD\|224276	COG1357, COG1357, Pentapeptide repeats containing protein [Function unknown].	7.15228e-16
NC_009089.1\|WP_004455014.1\|3127141_3128506_+\|amidohydrolase	gnl\|CDD\|238623	cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are catalyzed by atrazine chlorohydrolase (AtzA), hydroxyatrazine ethylaminohydrolase (AtzB), and N-isopropylammelide N-isopropylaminohydrolase (AtzC). All three enzymes belong to the superfamily of metal dependent hydrolases. AtzA and AtzB, beside other related enzymes are represented in this CD.	1.28909e-173
NC_009089.1\|WP_014466379.1\|3141598_3142468_-\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	gnl\|CDD\|224131	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane].	4.54651e-174

>NC_009089.1|WP_009893715.1|3137497_3138307_-|DUF3800-domain-containing-protein
MFIDESGRADINHEDPFTLTGVIFEYKYAVSQGDYVCSLRKEMDAFKEYCFGTSNIGIHLTDISRKSRAFEKFDDSQIKLFYDELPLFLSRLECTIISVTVDKARLKKYYAPSKEPYVVAFIHVLQNFYSFVNNETVESARIVIESRDDVSNLKVQKAFFDVFNNGTIYLDIDEELRDKVKGFIIAKKEDADYREGLEIADILCNPLSRARRGLIEANPKCMQYGEKNKIFKSVRNKIYTPTSVNDIRNWGFKEVPIVEPVGPWLEKMR
>NC_009089.1|WP_009890955.1|3136408_3137290_+|LysR-family-transcriptional-regulator
MNLYHLRYFVTLAHLEHYTKAAENLSITQPSLSHAISLLENELGVALFEKEGRNIVLTKYGKIFLKDVEKSLEILDSSVKSLKITGTGEGQIDLAFLRTLGTDFIPDIVHKFLKSNPAKSIDFKFHTGVTTDIIQGLKERKYDIAFCSKLEKEKGIEFIPVAKQDLVLIVPYSHPLAAKDTIDLKETIPYPQIVFNQRSGLRYIIDDMFKKINQQPNIVYEVEEDQVIAGLVAKNFGIAVVPNMNMLSFTKVKVIQIIHPSWERNFYLAFIKDRYLPPAIKNFKNFVIKNAQL
>NC_009089.1|WP_004455019.1|3135147_3135996_-|sugar-phosphate-isomerase/epimerase
MNNQKNLNIPITISSYTLGTEVSFRDRVRIAKEAGFDGIGLRAENYIDAKNAGVTDEEMIAILNEYDMKVTEVEYITQWGREEDRTEAQREKEQNVYHMAHLFNVKHINCGLLEMIPEEQIITALGELCDRAGELIIGLEFMPYSGVPDLATAWRVVKGCNRENAMLILDTWHWARAKQTAEDLAPVPADKIVSIQVCDVLETPYEKLRDESLHDRLAPGEGYGNTEEFVKIIKEHNISPRVIGAEVISDSLISKGLSTAAETVFNATKKVLDKAWSEVSPK
>NC_009089.1|WP_004455018.1|3133146_3135069_-|FAD-dependent-oxidoreductase
MKISSMFTPIRIGSMTVPNRFVVPPMGNNFANTDGTLSETSKAYYLERALGGFGLITIESSVVDKKAKGGPRKPCLYDDSTIDSFKNVIDACHDAGSKVSIQLQHAGSEGNEKVAGHPLKAASAIPASNGRNTPLAITTEEIYELIESYGDAALRAQKAGADAVEVHCAHGYLVSSFISQRTNKRVDEFGGCFENRMRLPRLIIENIRKKVGNSLAILCRINSTDDVPGGIDVHDSSVIAAYLEDCGIDGLHVSRSIHIHDEYMWAPTTLHAGFSAELVTEIKKAVSIPVITVGRYTEPQFAELMVRQGRCDLVAFGRQSLADPEMPNKAKNGKLDEMIPCIACLQGCVPNMFQGKPIACLANPILGHEAELKPAEISKEVLVVGGGVGGMLAAWVCAKRGHNVTLVEKSEVLGGQMRLAAYPPGKGDITNLVRSYISKCNQYGVKICTNTEATVELIKEKSPDVVIIATGATPLVLPIPGINDSGLIHAVDLLDGKKSCGKKVLVVGGGMVGCEVAAFLGEQEHEVTVIELREEVGADVISEHRKFLMNDFENYNIHTITGAKVSKFYDDGVDYLLTDGTEHDLKGFDSVVLAMGSRNYDPLSEVIKEVVKETYIVGDAVKARRALDATKEAFEVALNI
>NC_009089.1|WP_162835937.1|3132201_3133071_-|shikimate-dehydrogenase
MVMEISGRTGLFALIGTPVGHSKSPVMYNYSFKKLDLDYRYLAFDITVDKVKEALLAIKTFNIKGANVTMPCKSAVTEYMDELSPAARIIGACNTIVNDNGKLVGHITDGVGYVRNLKENGVEVKGKKITIMGAGGAATAIQVQCALDGAREISIFNPKDDFYKRAEQTVENIKKDVPECVVNLYDLEDTNKLYEEIESSDILTNATLIGMKPYDNETNIKDTSVLRKDLVVTDVVYNPKKTKMIEDAEANGCKAIGGLGMLLYQGAEAFNLYTGLEMPVEEVNELCFK
>NC_009089.1|WP_004455016.1|3130784_3132002_-|MFS-transporter
MNNKKYYPTAIALYFSYFLLGIGISILGQYKPEFSSMWGAKTLSDGTLDVSIVLAVIAALGLGRLISYPFAGPISDKYGRKVSGLIGNFLHAIFFVGIVFSPNFYIAYVFAIIGGAANSFLDTCVTPSCMEIFASLGTIANMFTKFTIALAQFLLPFIIGFVAANSISFKVIFIVTAILIVVDAFLIAVLPFPPANNVIDNKGKTVKSEKMKFTPTSIALVCIGFTCTSTFVLWLNCNQELGKLYGMADPTKIQSFYSMGVICAVLITSLLIKKYIKPIRILVIYPIIALLMLLVVYFVQTPTICMLGGFVIGYSAAGGVLQLTTSTANEMFPTNKGKITSIVMIASSIANYVILNIAGIITKSGGVNGPKYVVLFNVAITFVGILLALFVNMRYEKEKVYDYDV
>NC_009089.1|WP_016728660.1|3128683_3130549_-|restriction-endonuclease
MENVFKRLQEFNGYDGYKESFEMNYLCIYESIPLREQVELANNLVDEILNMYKSESNEIYLLEDSNSKSLICYFEIFMKKINTLVKEMIIDEKWLYKLTKELIYKSKKVEYVKLGLVLSEKYLNVENLREVVDTFSKSGEYVFYLSNTIKKLEFYNTYLFNLSKKATGSIKVFAIVNMENLDSKINSYLIEDGYKDTKYERLLMNYIISIVDLNEYLEKRDLDKEKINNLARLICNYLLSVEFKYIGNKLELVNRFLPTVVNYGTNFESLYSIFLIAINVLKDENIECNKIEFEKEINDILLSEKWKNIYFEALRDASGKTEDIIKMSEIYDVNLSFDDLLPYLNRDIRDFEVYWHISKKGTTSSRLKLLNFFEETFKIDDLIGKMKDIEKDKLTQEYYDDMLFFIVLKGSKSLYPEGKNISLKGIFGNINEVRKESINILKRYREKLSLEELKIVKEAYEKEKNVILKDELRRVLYESNNLKKEFVNIEKIKVDEHGKDIYLTSIAVAGSRFRNREYLEKELEKSKIYYLTREKDNLYDEKAIKIVGETGYVIGYVPRKENYILSNLLDGGKLLYCRVTEYNLYEDCIYANVYLSYKDVIETVENSLKMVLDKSRIKLIN
>NC_009089.1|WP_004455014.1|3127141_3128506_+|amidohydrolase
MSQLLIKNAYLITMNADREVYENGSILIENNIIKEVGKFDINIVDKDAEIYDAKGKILMPGLVNTHVHLSQQLGRGLADDVVLLTWLRERIWPYESSFNYEDSLISSTACCVELIKSGVTTFLESGGQYVDAMVEAVDKTGLRACLAKSVMDTGDGLPEAWQKTTDEEINTQLDLFHKFNNTSNERIKIWFALRTIFNTTEELLVRTKELADKYNTGIHMHIAEIADEISFVKQNNGVGTVEYLDKLGVLGPNLLAAHTVWLTHKEIDLFRLHDVKVSHDPGSAMKVVLGFASIPEMLEKGIPVSIGTDGAPSNNRMDLMRDMYLTSLIHKGRTLNPTVVPAEEVLEMATINGAKCALLEKEIGSLEVGKKADMIILNPDTIHCLPMHNPIGNIVYSMTSENVDSTICDGKWLMKERKVLVVDESELLNKVKKQASKIKDKAEVKIPSKFKIIK
>NC_009089.1|WP_003421552.1|3125619_3126963_+|NCS2-family-permease
MVPNTNNVQPGGNNSSLSFLDKMFKFSERGSSLKTEVIGGVTTFLTMAYIVFVNPAILSEAGMDKAALITVTILATAIGTLIFAILGNAPFALAPGMGLNAFFTYSLVIGAGIPWQTGLGVVFLSGCVFFTLAVTGLRKTIADAIPRELAVASSAGIGLFLAFVGLKNMGVIIANPDTIVSLADFTPTVLIALFALILMAILEYKKVKGGILISIVVATIISVIFGFVELPTAIISTPPSIAPVAFKLDIVGALKFSLIGPIFSFMFIDMFDSLAFLITCCKQMGLEDENGEIKDLGRMLYADVSSTLIGSFLGTSTVTTFGESASGIAAGARTGLASIVTAALFLATLIFTPLLGIVPTYAAAPALVMVGVFMFESIKQIDFADSKIAVPAFVTVLLMPLTYSISIGLCFGFISYIIMHVVAKETDKISITLWIIGLLAVVNLVLS
>NC_009089.1|WP_011861651.1|3124463_3125117_-|pentapeptide-repeat-containing-protein
MTKIIKVQKPKFTGELEIIENLEDILEDIFNDEKIFNKIIENEVISDLDSVRVSFESCIFRNVSFENCNLKKIDLLDVVFENCNLSNTFFDGGSIYRVEFKNSKLIGVRFDDCILKNVLFKDVLGKYSNFSFSKFKIVSILDSNFENSVFQEVKGDNLVFEYTNLKKANFNGTKLSGIDFTTNNIEGIEIGIDDIRGAIFDVSQAIDLTKLMGIIIK
>NC_009089.1|WP_011861656.1|3140561_3141575_-|UDP-glucose-4-epimerase-GalE
MAVLVAGGAGYIGSHTAIELLESGYEVVIVDNLSNSNSIVVDRIKELSKKPVKFYNIDIRNKDEMHIVFKENNIESIIHFAALKAVGESVEKPIEYYSNNLISTLNLFELMREYGVKKFVFSSSATVYGDPHTCPILEDFPLSVTNPYGRTKLMIEQMLVDISKADKSLDIALLRYFNPVGAHKSGRIGEEPNGVPSNLMPYITKIAVGKLKELSVYGNDYPTHDGTGVRDYIHVLDLAAGHVKALQKLEENPGLVVYNLGTGKGYSVLDLVKAFSKASGKEIPYKIVGRRAGDVAMCYADSSKAEKELGWKAKYELEEMCEDSWRWQSMNPNGYEE
>NC_009089.1|WP_014466379.1|3141598_3142468_-|UTP--glucose-1-phosphate-uridylyltransferase-GalU
MTVKKAIIPAAGLGTRFLPATKSQPKEMLPIVDKPTLQYIIEEAIESGIEEILIITGRNKKSIEDHFDKSVELELELEQKGKTEMLEMVRDISNMVNIHYIRQKEPKGLGHAIYCAKSFIGDEPFAVLLGDDIVDSDVPCLKQLIDTYNEYKTTVLGVQKIAKEDTNKYGILDVKHIEDRVYKVKDMVEKPAIEEAPSDIAILGRYIITPAIFSILEKQTPGKGGEIQLTDALQTLGKQEAIYAYNFEGRRYDVGDKIGFLEATIDFALKRENLKDDLMDYMRKKVSEK
>NC_009089.1|WP_004455025.1|3142665_3142986_-|hypothetical-protein
MSSKYNVWTFNYEFLGLDSGDEKNNEVYYEIDLDEILNENYIDEDIDSGLDSDGNSILGELISEMDIDEDVSVDMTYQELEVDLEDLDSYLDEDIDSDIKGILDEI
>NC_009089.1|WP_011861657.1|3142975_3144967_-|hypothetical-protein
MLKLGEKIIYELSDGFELSGISRYSKEYKKLHITNLGNIIISKSDEVNEDTGVKYIYSFSDNKEKLEAVLEDSQIIVYGNNLPFYIKSENSSKNVTANLTMKITLDEYDLICKSQREFIFYLKDNMTILSLDDNKFYMGGINKDNEKFIFISGKNRFEINFDDIERYILEDKRVSLKGYFHMEREGIIVRSVSIFNNNIDSVVPSDLNERVKDNQKIGNLPKDCEIVFCKISGNIDGFDYKNTNMLLVKYQDQLIFINKKSKKTIVKSAKDNCSKLNLGEDIILYDNKNVFNLHINDKNREIMQIDDLKDIENEIVGYTLKHAPFFIQEDFDSLTILKSFQKEIISIKNSDIKDIVINKEFENENSNFVETEIKFNNQKVLLNLSKSMVQKLMQDVFIYAKQPLLKENSIEVIYKNWSKAMNDMIIFNFFGNIYYMKSEFDKILEKELNDEIRIEVINSLYKQIQEQRNNLDLLSAYMPRILENQEIDLFEKYNTKLDVQVFKQIKNLLSDLSYNISSYLNEVEKSLDNIIFVISGEDKKKYNYRMLKESESASLDVFLKQAISRLNHLVENMYPYYVDETSREMFKLFELLWKNYRNIDDDSIKEILFERITNTYVFKQLTLNNSTKERRKDIIEKIYNSVDYGTNKLDENMFFTGGIKYVK
>NC_009089.1|WP_011861658.1|3145089_3147633_-|SPOR-domain-containing-protein
MKVLSENNIIRNTVLNVTASFLKQESKINEKLDGVLEKKFEKVEFNEAKYAELLKFNILFYKTLARNTEPLIGKWIVDKYIPEIDELEKDLELTTAKCRKYVNKAMKEGLDSLKANDLNSFLAYDKMELSERRRRLEKDYKVLNLYKDLLNISLRKISLEKKECGDLFLKNQADAKRELKREIIFCVNKILASNKDVVPNNVEENNEQDKVEIKATEIEDLQLGKDNSENDMLLNEIKNSKVKHESKSNDIESKFIDKLNSLNNESVSQTIHNEYKKLCGLEELHSVEGYGFGKEIIKDFACATVVLEFLKRRNRDLIEGAMRLTIIGEFGPENFKEFVDYVIKNKTEISEDTWNKAQNLIKDNYSELENHEIASKRTRRNKDIDIEEYIYMIKNADKDICFRSSISIEDDAEEGVKEEIDSNNQDIGDVVEDKDTTDKEYDSNKEDIIEPENKKSKKKAKLFGFIKKDNEEVEQEEENLNDISPDIILDKPVENNQVKSEEIEQNELKEIKQEEPSQHIEEERSVKIEKPINNNLDEKVSSNNESKLEKESKNLEDKKAKEIKEEKLENEKSVVIPIKKKENSNKKSKNSSKDKYRENKKEMKNYVSDKEDSLDDEEVVSKKSRLKETIIAVVIVVIVGVGYFITVGNNKKNDKENIPKSSTQQQANNKLTEEEKKAQAEKEKKEAEEKAKAEKEAQEKAQAEKKAKEMEAYKDGKGVYYTVYAGSLKVEKTAKETAKEYEAKGISSTIIQENGYYKIKIGDYSQYGEAQEKCNELAKKSIDTYIAMYDKYYDYKLEELKESAPSLSAEELKQKYEDLRSELKNKSGYREYVKHLDKLYEEIVEGA
>NC_009089.1|WP_009903304.1|3148376_3149054_+|sortase-SrtB
MKKLYRIVINIILVLVILYSGFNIYSKLTKYNHDTKISSELQKKEYKKEDLSKINSDFKFWLSVENTNINYPVVQSKDNSYYLDKDFYKKDSISGTLFMDYRNKSIDDKNIIIYGHNMKNKTMFNNLNKFKDADFFKKNNKIKITLNGKEFLYDVFSAYIVESDYDYLKTNFNNESDYQNYINDITSKSLYKSPIKVNSNDKIVTLSTCTYEFDDARMVIHGRLI
>NC_009089.1|WP_009897898.1|3154446_3155385_+|delta-lactam-biosynthetic-de-N-acetylase
MFRKVLHYLTLLSISIFFIVGCSNSQNNQNENQNKETQLQEDKEKIDSGKDTSNVIVSDGTDKPSKATTNNDNNKLDVSSLDNTTLDWFYIPNNKHKTPEVNTDIEFKFSDYDALYNGPTKDGQKTLYLTFDEGYENGYTTKILDTLKQNQVKAVFFVTAPYIKENKDLVKRMVSEGHIVGNHSKTHPSMPTKTSNLKNFNDELYDVEKLYKDVTGKDMVKFFRPPMGKYSEKSLAMTKNLGYKTVFWSFAYRDWDTDKQPSHEEATQKIMDNLHDGSILLLHAVSKTSTEILNDFISNARKLGYEFELLEY
>NC_009089.1|WP_011861659.1|3155756_3157130_-|transporter
MVLTGAHYIYILFMVIILITMIMKKDTIVPCILGVFFMGLFFEKNIFGAITAVFNSFIISLNELGPIILIIAIMVALSKALEANNAIQYMVRPFSRVIKNSNTAFFVTGFVMLVLSWFFWPTPAVALVGAVFLPVAMRAGLPAIGVAVALNLFGHGLALSTDFVIQGAPSITAGAAGVAVSYVINDGMILFWVMGIVTISMAFYTLKRDINKGMFREELKGFESEEVEEFNGKSKIATILVALGFLADIIAMYVFDLKGGDASALLGGTAVFLIIIINVINFGKDSLENVCENIIDGFVFGIKIFGAIIPIAAFFYMGEVAPLTGVFGKVLAPGSQGLLSDIGIALSQTIPLNKFAVSGIETVVGAITGLDGSGFSGISLVGSLASVFGTAINASVGALAALGQISGIWVGGGCLVPWGLISAAAICGVSPIELAKRNFVPVITGLVVTTIVAMFII
>NC_009089.1|WP_004454160.1|3157358_3158681_-|HAMP-domain-containing-histidine-kinase
MINKIKPSKLGVILLIYVVISAAVAFILNIPFYSAVESIVKDVSEGKVYFKREVNQLMDNFQTYVNNNGIRADDGDDIAKWNSDNWFVSMKIYKGNKVFYDTLYYPNEVPDKSEENEFYSSPMARNYEIQFSDIKANIVVVALFRFRFQNFIEAISITFMALTFIITFLLLFSRKIKYLRKIEMGIKIVESGSLKYRIPVKGNDELSSLASSINEMSHTLENQLIKEREMKNKNKDIVTSISHDVRTPLTSVICYLDLIKDHKYNSPEQLEQYIKNVRSKAYQIKDLTDDLFTHFVNSGEEVSKGYEKINANEFIFQLLLDSSYTLEEKGFHITIENELYNQYHIYVDVTQFRRIFDNLCSNIIKYARKDKPIVFLIKVEDSKLLIIQKNRVSNFSKNVESFGIGIKNCEKIVAYHNGSINVNSDDKEFAIEISIPAKES
>NC_009089.1|WP_003426384.1|3158673_3159378_-|response-regulator-transcription-factor
MNKEIPKKILVADDNPEIREIVEILLTGEGYEVIMATNGEEAVNLVDSTIDLIILDVVMPVKTGFVACNEIREKTTAPILFLTAKTQDSDKVIGFSAGGDDYLSKPFSYSELISRVKSLLRRYYIYQGKEKEREPNILKTKELCVNLDTQDVTLNGEPVFLTTIEYSILILMLKNRKKVFSSENLYETIWDEQYFYTANNTIMVHIRNLRKKLEKDQKNPQYIKTAWGKGYYID

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Crispr_ID: NC_009089_17

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_17

3195209-3195299

Orphan

Consensus_repeat	Method
TTTCTTTTACAGCTTCTAAACATAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009089_17

>merge|NC_009089|17|3195209-3195299|CRISPRCasFinder
TCTGTTTTACTGCTTCTATACAAATATCCTCATTTTGATTTGTTATATACTTAAGAGATTTATATGTCTGTTTTACTGCTTCCATACATAC

>NC_009089|17|15|3195209-3195299|CRISPRCasFinder
TCTGTTTTACTGCTTCTATACAAAT	ATCCTCATTTTGATTTGTTATATACTTAAGAGATTTATATG
TCTGTTTTACTGCTTCCATACATAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861667.1\|3195903_3196569_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|235028
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|single-stranded-DNA-specific-exonuclease-RecJ	unknown	unknown	gnl\|CDD\|273193
NC_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	unknown	unknown	gnl\|CDD\|376329
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	unknown	unknown	gnl\|CDD\|380294
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|223394
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132848
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	unknown	unknown	gnl\|CDD\|224006
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	unknown	unknown	gnl\|CDD\|377395
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	unknown	unknown	gnl\|CDD\|275064
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	unknown	unknown	gnl\|CDD\|223733
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224870
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293792
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|119407
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	unknown	unknown	gnl\|CDD\|100051
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	unknown	unknown	gnl\|CDD\|235383
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	unknown	unknown	gnl\|CDD\|274892
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	gnl\|CDD\|235028	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional.	1.26188e-100
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|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_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	gnl\|CDD\|376329	pfam00381, PTS-HPr, PTS HPr component phosphorylation site.	1.66602e-32
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	gnl\|CDD\|380294	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX. This protein, PglX, is a site-specific DNA methyltransferase associated BREX (bacteriophage exclusion) type 1 systems. The phage resistance appears not to be through restriction-modification, as phage DNA appears not to get degraded, but it does manage to inhibit phage replication.	7.41689e-18
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	gnl\|CDD\|223394	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription].	0
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132848	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli. Patatin-like phospholipase similar to Z1214 protein of Escherichia coli. This family predominantly consists of bacterial patatin glycoproteins and some representatives from eukaryotes and archaea. The patatin protein accounts for up to 40% of the total soluble protein in potato tubers. Patatin is a storage protein, but it also has the enzymatic activity of a lipid acyl hydrolase, catalyzing the cleavage of fatty acids from membrane lipids. Members of this family have also been found in vertebrates.	2.241e-60
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	gnl\|CDD\|224006	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism].	0
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	gnl\|CDD\|377395	pfam04647, AgrB, Accessory gene regulator B. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein.	4.92858e-22
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	2.18685e-70
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	gnl\|CDD\|275064	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide. Members of this family of short peptides are precursors to thiolactone (unless Cys is replaced by Ser) cyclic autoinducer peptides, used in quorum-sensing systems in Gram-positive bacteria. The best characterized is the AgrD precursor, processed by the AgrB protein. Nearby proteins regularly encountered include a histidine kinase and a response regulator. This model is related to pfam05931 but is newer and currently broader in scope.	4.07974e-08
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	gnl\|CDD\|223733	COG0661, AarF, Predicted unusual protein kinase [General function prediction only].	1.07824e-141
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	gnl\|CDD\|224870	COG1959, COG1959, Predicted transcriptional regulator [Transcription].	4.93588e-10
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293792	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain. Members of the MBL-fold metallohydrolase superfamily are mainly hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) for which this fold was named perform only a small fraction of the activities included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases which can catalyze the hydrolysis of a wide range of beta-lactam antibiotics, hydroxyacylglutathione hydrolases (also called glyoxalase II) which hydrolyze S-d-lactoylglutathione to d-lactate in the second step of the glycoxlase system, AHL lactonases which catalyze the hydrolysis and opening of the homoserine lactone rings of acyl homoserine lactones (AHLs), persulfide dioxygenase which catalyze the oxidation of glutathione persulfide to glutathione and persulfite in the mitochondria, flavodiiron proteins which catalyze the reduction of oxygen and/or nitric oxide to water or nitrous oxide respectively, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J which has both 5'-3' exoribonucleolytic and endonucleolytic activity and ribonuclease Z which catalyzes the endonucleolytic removal of the 3' extension of the majority of tRNA precursors, cyclic nucleotide phosphodiesterases which decompose cyclic adenosine and guanosine 3', 5'-monophosphate (cAMP and cGMP) respectively, insecticide hydrolases, and proteins required for natural transformation competence. The diversity of biological roles is reflected in variations in the active site metallo-chemistry, for example classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, human persulfide dioxygenase ETHE1 is a mono-iron binding member of the superfamily; Arabidopsis thaliana hydroxyacylglutathione hydrolases incorporates iron, manganese, and zinc in its dinuclear metal binding site, and flavodiiron proteins contains a diiron site.	6.95373e-73
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|119407	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs are members of the bacterial autolytic system and carry a signal peptide in their N-termini that allows their transport across the cytoplasmic membrane. However, the bacteriophage MurNAc-LAAs are endolysins since these phage-encoded enzymes break down bacterial peptidoglycan at the terminal stage of the phage reproduction cycle. As opposed to autolysins, almost all endolysins have no signal peptides and their translocation through the cytoplasmic membrane is thought to proceed with the help of phage-encoded holin proteins. The amidase catalytic module is fused to another functional module (cell wall binding module or CWBM) either at the N- or C-terminus, which is responsible for high affinity binding of the protein to the cell wall.	1.53303e-72
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	4.4803e-89
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	gnl\|CDD\|100051	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed by the regeneration of the active site by ionization of the zinc-bound water molecule and removal of a proton from the active site. They are ubiquitous enzymes involved in fundamental processes like photosynthesis, respiration, pH homeostasis and ion transport. There are three evolutionary distinct groups - alpha, beta and gamma carbonic anhydrases - which show no significant sequence identity or structural similarity. Gamma CAs are trimeric enzymes with left-handed parallel beta helix (LbH) structural domain.	6.21398e-81
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	gnl\|CDD\|235383	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.	1.06886e-98
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	gnl\|CDD\|274892	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase. Members of this protein family are predicted radical SAM enzymes universally associated with Six Cysteines in Forty-Five protein, or SCIFF (family TIGR03973), a predicted ribosomal natural product precursor that is nearly universal in the class Clostridia. Similarity of this family to radical SAM maturases (PqqE and subtilosin A maturase) found in the vicinity of other peptide precursors suggests this protein is the SCIFF radical SAM maturase. [Cellular processes, Biosynthesis of natural products].	0
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	4.20668e-39

>NC_009089.1|WP_004454130.1|3193183_3193762_-|accessory-gene-regulator-B-family-protein
MFKRYAEKMTSVLICNNMIDNNESKVYSYGFEILIAFIVNITTMLFIGFLFGKFTYVLFFLMCYCPIRQFSGGYHADNYFRCLLTFIFIILSTILIIENINIDLFKNIIMIIASVSWVGICVLCPIEHRSNPISDREKLVYKKTAIFISTVVLLITILSLSLSIFVDYFTYSAFAMFWIFVMLVLGKLKAKV
>NC_009089.1|WP_003426457.1|3193007_3193154_-|cyclic-lactone-autoinducer-peptide
MKKFIVRFMKFASSLALSTAILSANSTCPWIIHQPKVPKEISNLKKTN
>NC_009089.1|WP_011861666.1|3191323_3192703_-|thioether-cross-link-forming-SCIFF-peptide-maturase
MSMIHKFSMNGYNIVLDVNGGAVHVLDDVAYDLLDFYKEKSKEEILEILKSKYQEEKINEAYEEILNLEKEGLLYTEDTYQYHPSFVHREPVVKALCLNVAHDCNLKCKYCFAAQGDFGGEKELMSFEVGKAAIDYLIANSGSRKNLEIDFFGGEPLMNFEVVKQLVDYGRSVEKDYNKNIRFTITTNGVLLNDEIIDYINENMHNVVLSLDGRKEVNDNMRPTLNDKGSYDITLPRFKKLVEKRSKDKYYYIRGTFTRDNLDFSKDVMHFADLGFKLTSVEPVVGDESNPYALREEDLPKIFEEYEKFAVEYADRQLQGDGFKFFHFMIDLNQGPCVIKRITGCGAGNEYLSVTPNGDIYPCHQFVGNEEFKMANIFDEEIVLPENLKNMFREAHVYTKEECKQCWNKFYCSGGCHANAINFNSDISKPYELGCEMQRKRTECSIMIQAKLMLEGATN
>NC_009089.1|WP_004454132.1|3190797_3191295_-|gamma-carbonic-anhydrase-family-protein
MIRDYLEDKPLIDESVFVAKSADVIGNVKIGKDSSIWYNAVVRGDEGPITIGENTNIQDCSIVHGDTETIIGNNVTVGHRSIVHGCKISDNVLIGMGSIILDNAEIGEYTLIGAGTLITSNKKFPPGVLIMGSPGKVVRELTEEDKKYIDESYEWYLEAAQNQKY
>NC_009089.1|WP_009891005.1|3188835_3190500_-|AarF/ABC1/UbiB-kinase-family-protein
MRISYRNLKRYREIGYVLIKYGFSFIVERLNIEGIAYKIPLFDPPEEIKNMTTGERMKRVLEELGPTYIKIGQILSTRKDLLDQDIIDEISKLRDDVEKFDSNIAIDIFKEEVGLSIEEIFLEFKEEPIAAASIGQVYEGVLKTGEEVIVKIQRPNIEKIIKSDLEILRTIANTLKDLKKDFNLDLVQMIEEFQTQLMRELDYTFEAINATKFSRIFKNSDEVYIPKVYSEYNTKKILVMEKVNGTKLSDVEKIRRLGYNTKTIVEIGVRSFFTQVLSHGFFHADPHPGNIFVVAKNKIAYIDFGMIGIIDNKTLNQLNEIALAGVEKNVDKIIYLLIEMDALNGEADIKGLRQDLLYLIHYYYDISIEKINVTDILNELFRFFRQYKIVMPAQFVTLAKTVITLEGTSRTLNTDFSFGSMGKEFMKHHYKSKFNPKNVVLSSRQNVEEILLDIKTIPKQLKAILKNIERNNIKMQIEDVKMTRLENCIIELTSQISLSLVLASIIVGSSLIIASPNIENNIWIKFTAIAGFFISFIIGLCLVIRSIRSKYKKD
>NC_009089.1|WP_011861665.1|3186372_3188823_-|single-stranded-DNA-specific-exonuclease-RecJ
MKKWILKYKGKIEESEFSKKLNISPEICQILKNRGICTEKDSEIFMNPSLDYLRDPFLMKDMQKAVDRIKLAVEKNEKIWIYGDYDVDGVSSTSILCLYFKSIGYNVDYYIPNRLEEGYGINEDAIKLISSRGCDLIISVDCGITSVSEVNTANDLGIDVIITDHHECQSEIPSAFAVINPKQEDCNYPFDSLCGCGVAFKMIQALTPKEEFKTSMYNYLEIVTLATICDIVPLIDENRIIVKNGLKSMKEGKNIGLRELIKVCGVESDKIGSSHIGFAIGPRINASGRLGYSYLGVELFTTQSQEEAVEIASILEEKNNERQMIEAKMYHEAEEMLKSNSRYNDDKVLVLAKEGWQHGIIGIVASKLTEKYYKPTILLGIENGEATGSARSIKGFNIFEALIKCKDLMTKFGGHEQAAGLSLDSDNVEILANEINKFADYNLTEDDMIENVNVEFELQENVINLNLVEELHKLEPFGLNNPNPRFIVRNYILKDLKVIGKNQQHLKLSIEKEKSYECIGFNMSHLKSMYKVGDKVDVLFQLDENNYMGNRKVQFLLKDIRLARPKSASNDKLSLKLMSKIIPKDTQSLYNISVSDFELFDGNTDINIFDYFEKDTLIISNSINGFYRAMSDISLIDLDFNINYNIIEDDSKNTDKLELIFSPNIDKIDLKRYNNIILYDYLYNKGEYSYIYENKREESEIIKYYNKTDLLYLKNVVSNIVPSRDEFITIYKQALIKKEIDLDMVNIRETFNVIPLKFFTILNVFRELNLLDFNLNYEKNSVLIRILPKPQKKLDLNESLILNNLKNLEKQYNSSY
>NC_009089.1|WP_003426450.1|3185847_3186360_-|adenine-phosphoribosyltransferase
MDLKNFIRNIDDFPKPGIDFKDVTTLFKDGDAFKYAVDSIVEELKDKDVDLVIGPEARGFLMGTPVAYALGVGFVPIRKPGKLPGEVESYEYGLEYGTDTLEIHKDAIKKGQKVAIVDDLLATGGTMEAAAKLVEKLGGEVVSMQFLIELKFLNGREKLSNYDVNSLIKY
>NC_009089.1|WP_003422921.1|3183566_3185774_-|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase
MHDKELQEIIEKIKVYAPNANFEMVEKAYNLAKKAHEGQYRKSGEPYFIHPLAVANILIEMELDIETITAGLLHDVVEDTEYTYEDIKKEFGKEVADLVDGVTKLGQIKYRSKEETQSENLRKMFLAMAKDIRVILIKLADRLHNMRTLKYMPPEKAKYKAKETLEIYGGIAHRLGISKIKWELEDRALRFMDPEGYYDLVSRVSMKRSQREDYIQGIVELLKDKFKDLSIPCDVYGRPKHFYSIYRKMQKKHKTFEEIFDLTAVRILVDNVKDCYAVLGIVHTLWRPIPGRFKDYIAMPKPNMYQSLHTTVVGPDGEPLEIQIRTHEMHNIAENGIAAHWKYKEGISSKESKVEEKLQWLRQMMEWEKDLKDPQEFMDALKEDVFNSQVYVFTPKGDVIELPAESTPIDFAYRVHTNVGNKCVGAKIDGRIVPIDYKLQNGNIVEVLTSSNSNGPSRDWLNIVKTPNAKSRIRQFFKKERREENVDRGNTILEREFKKHDIPQKDPLVEKYMALVAKKFNQPSVEDLIATVGYGGIMSSQVVSKVKDLYLKEVKKAKKEQQIQEEDLNKHNISETEYSKKRKKNASQGIIVKGLDNILVRFAKCCNPLPGDEIVGYITKGRGVAIHRADCPNANNNGDFFQNRLVEVSWSSAGKGKFEAEIQIKAIDRRGIVNEITHIVAMDKLSLNGINARKGKDSIVSINLLVEVNDTEELKILMKKLKAIPGVESIYRMTN
>NC_009089.1|WP_003426448.1|3183092_3183542_-|D-tyrosyl-tRNA(Tyr)-deacylase
MRAVVQRVSSSKVTVDENTIGQINKGLLVLLGVTHDDKSSDVDYMIDKILNLRIFEDENDKMNLSLMDIGGELLVVSQFTLYGDCRKGRRPGFSNAARPELANNLYEEFVKKAKDKGVTVGTGQFAAHMMVELTNDGPVTILLDSSKSF
>NC_009089.1|WP_004454137.1|3182463_3183078_-|MBL-fold-metallo-hydrolase
MIIKKFVDSYFGVNTYVLGDEKTKKCAVIDPGGSLVETLSFVKENELNIEYIILTHGHGDHIGYVKDIKEKTGAKVVAHVDEKELLNDKNKNLSYTMRCGAQEFDADIYVNDKDKLELGELKMTFLHTPGHTQGCMCIRVEDEMFTGDTLFAGSIGRTDLYSGDFNQMEKSLKKLCKYEDAVRVYPGHGPTSTLGVEKKTNPYM
>NC_009089.1|WP_011861667.1|3195903_3196569_+|hypothetical-protein
MKGNIVQYNFADIEEEVYSLDYAIAWNTNEENVNIIPFTNKFCKESIESFCLGKINNFVEILNEGFVENHHYVHLDKMISVPKKKVNLVYQQDTHGYLLRDDNDNLIPAKITSEQSKSISSKMELFCAGEEKCLINILLKADPSYILDVDSIKDKNILNLGYESIDRYKEYNFDDDKILIFFINKKRYSVIMKKTNNSDNDLVSRNNAIKELFTNKAGNLN
>NC_009089.1|WP_011861668.1|3197074_3199777_-|EAL-domain-containing-protein
MKNVSKKFFVCTIIVLITFLCFSKFAIYVFDKQEKKETKVVENMLNVYKNNIILNLTEKFNYSKDLTSVLVSNNYSIDKLKPIADEILKNNSCIYISVVEKYNVAAFFSNSVKKDIINTPIQELNYSYSLANSIKGLVVEGPSKDQFSNGDVFLITNPIYKNGEYWGEITVALDAKKVVDSFNLNKLKESGFEYELWRVHLDNGSKSTIEISTKDFNFSKSHEIKFKLPTVWTLSIVYKNGWNNKNIDFIVFVILLIISILIGVMTFIYIEKKSISKELNQQSLKNLETGILNREGFLIKLQEHLNRKNNEIVLLYICITNYSKFAPVMSFEKRQDYLTHIVKNLDNYIKSSHFIARISEEGFVLALEENCDKNELLNIEKGISLELLRKIKVENKQVFLTIGYGSSRCVDDRKDAESLLLSAIEDYERRFPAMSPIHDFTKKCEDMLDEKKQIVFGEYPDLEINKLSKVIYKYYKKVQRIMYKDYNIDIGNRRGYMRDVEVLIDYNSERMLYLFLIDICKFGKFNELFSIEIGDVILKEVSNKLKTIFSNYLYRINGDVFLGISIDKESYLDTLHKVNEVFNSSLSVEDVLFDVKCNIGICQYPYHGENPYDLLEKVQIALEYAKKDVKSNVKVYDKELTEEIYHENNIIKDLKKGLEEQTLEVWYQPIFNVSKNCYIKAEALIRLRNKEGGYYSAYEVITYAEKHGLIKDVGLYVLKKACDVTTKIKDKNIDFEQMQLNLSVQQIVHKQCANDILSCIENCGLDKKYICVEVTETVLMETFEIVNVTLDKLKKEGISIALDEFGSGFSSINYLANLPIENLKIDKELVEQITYSKKQFELLKTIVQIAKINGMDIVAEGVETKETLDLVVTSGVNLIQGHYFSEPLSEDKFIELMIEE
>NC_009089.1|WP_011861669.1|3199802_3201353_-|GGDEF-domain-containing-protein
MRYKKRNIDKSSELSFQSLAKYFITFYIVIILIILSMFCINTIWVMKKDNQDLLSTTSNRIEDRVGETIKLLNSLSKDNYIIDNSVNGIDKSKELSMYSDEFGYMMICFVDKNIIVWDEEGGNISLAGRDYMQKLFATKKYQVTDSFAAGADGKTLNYTIASPIIKNGNVDGCVFAAIYFDEIKDILKQGKGQQQQNFILFGSENQIMNLTSDETAYGEKYMKLSQKTKYLGTNAKKVEKDMFNNKSGDYWAFENGKLYFMSYKPIKNTNWSLFCKVNFLDIFALNLIPMGAILSVITLVFIILICMEKSFMKKRMEVIDMLLGSVQELEKRIYQTERPSEVDFKEIIQLTSKGLTDGLTGVVTRTVFFDQIYNRVEMEENDKLSVISFVDLDDLKCINDLYGHEIGDMVLKNVGYVLREYEIKYNGLIGRYGGDEFVMLLSGFTSREEVEDLLDEIAIRLHTEVLTDDGIIQTHCSVGAVVCSVKDNKDIDNLLKQADEALYYVKRNGKGNYHLV
>NC_009089.1|WP_003431795.1|3201675_3203388_-|phosphoenolpyruvate--protein-phosphotransferase
MAYKGIGASPGVALGKALVVEHSELVIEKKSIDNVEAEIAKLEDAVAVSKEELVKVKEKASEELGAEEAEIFEAHLLVLEDPELIGSAIDKIKTESVNAEYALNEIKEMFVSMFESMDNEYMKERAADIKDVTNRILRHILGIKVVDLSALSEEVVLIAHDLTPSDTATMNKKMVLGFLTDIGGRTSHTAIMSRTLEIAAIVGLNDITSKVKDGDFVVFNGDTGEVIVNPDEETINKYTELKAKYEDERKALQLLKGKPSVTLDGKHVELAGNIGTPNDIEGLIKNDAEGVGLYRTEFLYMDRDSFPTEEIQYEAYKAVLEGMDGKPIVIRTLDIGGDKELSYLSMEPEMNPFLGYRAIRLCLDRKDIFKTQLRALYRASVHGRLRIMFPMISSLEELLQAKEVVKEVLAELDSEGVAYAKDVEIGMMIEVPSAAVISDVLAKHVDFFSIGTNDLIQYTCAVDRMNQKISYLYNQFNPAVLRLIKTVIDNAHKEGKWAGMCGESAGDQKMIPILLGMGLDEFSMSPISILPARKLITSVKESDMKKLADDVLNMGTAEEIKSYIEKTFNI
>NC_009089.1|WP_003422895.1|3203741_3204002_-|HPr-family-phosphocarrier-protein
MEKVVSIKNASGLHARPAGMFVKKAAEFKSTVEVVAKDKTVNAKSIMGIMSLGLAQGEELKLVVNGEDEEVALAAMVELVESGFGE
>NC_009089.1|WP_003431793.1|3204194_3205406_-|patatin-like-phospholipase-family-protein
MKGLVLEGGGTKGAYQIGAYKALRELGIEFQGVTGTSIGALNGAYIIQNDIEVMEDIWLNYDYTHFMNIDRETYERFKNVDFTTKNLNAVFELINKARKNEGIDISPLRQLMETTLNEDIIRKSKKDFGLVTVWWDKKINPYPLYIEDIPKGRLIDYLIASSSLPIFQTNMMDDKLYLDGMFCDNMPIGLLEDKGYEDVVVIRLIDDFIGKMNLNRHQNINIKTIIPSEYLGGSLNKDRDNVEKNIRLGYLDTMKAYERCTGIKYYFDVEYKYNEEYCFDKFRSMSNETIQYICNLLNIKRDASLRTVMESVIPKLGEVLGLPKDFSYKDLFYCIYEKKLEENNINRIKLYDFNKVIDVVNTNIDSNRNLASNFEVRPKISIKKNKNTKLLTNCIIKDIKNQS
>NC_009089.1|WP_003431790.1|3205637_3207371_-|N-6-DNA-methylase
MDDISQDNFLLSKEYENSLDVDTKKASGIYYTPKIIVDYIVKKTLKNHDIIKNPYPRILDISCGCGNFLLEVYDILYDLFEENIYELKKKYDENYWTVDNIHRHILNYCIYGADIDEKAISILKDSLTNKKVVNDLDESDIKINLFCCDSLKKKWRYKFDYIVGNPPYIGHKKLEKKYKKFLLEKYSEVYKDKADLYFCFYKKIIDILKQGGIGSVITPRYFLESLSGKDLREYIKSNVNVQEIVDFLGANIFKNIGVSSCILTFDKKKTKETYIDVFKIKNEDICINKFETLEELLKSSKFEHFNINQRLLSDEWILVNKDDETFYNKIQEKCKYSLEDIAISFQGIITGCDKAFILSKDDVKLNLVDDKFLKCWIKSKNINKYIVDKSEYRLIYSNDIDNENTNKRILDEIIGLYKTKLENRRECKSGIRKWYELQWGREKLFFERKKIMYPYKSNENRFAIDYDNNFSSADVYSFFIKEEYLDKFSYEYLVGILNSSVYDKYFKITAKKMSKNIYDYYPNKVMKIRIFRDNNYEEIENLSKQIISILLNKSIDKGKVEKLQIKMDNLIMDSLGI
>NC_009089.1|WP_003426473.1|3207410_3207809_-|Rrf2-family-transcriptional-regulator
MISEDVDYSIRIIRAIFNNGEDKPIDAKMILKSEDIPILTLYRLLRKLCANNILTFNKEDGKTYMLNVSLDTISLRTIVEVIDGKIYINKCTRYVSNCSNCLKGCKVNRELLEIEKEIYKLLSRKSIRQILE
>NC_009089.1|WP_004454122.1|3207811_3209359_-|EAL-domain-containing-protein
MNKNSMTRIYSLNKIIFIIIGILGIVLLTRHIEVDIKVLILILLTLFSINVFISYLKIKLYEDKINLGLINNSDKFINITKDENFLKHVQNYIISNEKENCVMACFDLCRLKLINDIYGYELGDEVLNNILSNLKNYFGKEAIYGKLKSDVFVLIIKLENREQKIPYLVNLIKNKIVILSQIDSFKMDINIEASIGIYKFNNNEIDIKKAIDNADMARLKSKGLKHIEYVEFDNAMEEEIQSIMKIERDLFLAIKNKEFVIHYQPKVDSSTGNIIGSEALIRWLHPSLGMVGPNKFIPIAEKNGLINNIGRWLIQEVFITINKWISEGINVLPVSINLSRVELYKNDLVDFFKLMFNTYNIPKELIELEITETTALRDVKFISERLYEIKSLGMNISLDDFGVGNSNFINLKGIPLDIIKIDRSLILDIVTNTKTKFMVKAIVNLSHDLNVTVICEGVEDMHQVKVLSELGCNFIQGYVFFKPLDEMNYKKLLTDGSYINLKDTLLDKCMTVEEE
>NC_009089.1|WP_011861670.1|3209673_3210579_-|N-acetylmuramoyl-L-alanine-amidase
MKKKLLDGKITLIICKSVKIYTKKDEEMSKGNNNNNSRNKSKKTSHLNRKKRKLNKKKLAVLICFTVLFLFIAFKATQGVVALVKSMDKSNKTSQQQNVNSEQFDLGNEEENKKKKYTVFIDPGHGGNDKGTESKTSNRYEKDLNLQIAKKLANKLSKQKDIQVVVSRTDDTYISLKDRAILANNSSADVLVSIHLNAEKNGNTATGIETWYRNKATDGSKELAQTVQSTIVSYVKVRDRGIVENNFEVLRESNMPAILIECGFLTTPSEEQKIINEKYQDQLAEGIVQGVLSYLDSKGNK

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Crispr_ID: NC_009089_15

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_15

3194435-3194610

Orphan

Consensus_repeat	Method
TTTCTTTTACAGCTTCTAAACATAT	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_009089_15

>merge|NC_009089|15|3194435-3194610|CRISPRCasFinder
TTTCTCTTACTGCCTCTAAACATATTAATTCTGTCTGATTTTCTACATATTTAAGAATTTTTCCATTTTGCTTTACTGCTTCTACAAATATTCTTTCTGTTGGTATCTTTACATAACTTAATATTTCTTTTATTTCAAGTTCTTCAAATGAACCTCTTACTGCTTCTATACATATA

>NC_009089|15|13|3194435-3194610|CRISPRCasFinder
TTTCTCTTACTGCCTCTAAACATAT	TAATTCTGTCTGATTTTCTACATATTTAAGAATTTTTCCAT
TTTGCTTTACTGCTTCTACAAATAT	TCTTTCTGTTGGTATCTTTACATAACTTAATATTTCTTTTATTTCAAGTTCTTCAAATG
AACCTCTTACTGCTTCTATACATATA

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861667.1\|3195903_3196569_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|235028
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|single-stranded-DNA-specific-exonuclease-RecJ	unknown	unknown	gnl\|CDD\|273193
NC_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	unknown	unknown	gnl\|CDD\|376329
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	unknown	unknown	gnl\|CDD\|380294
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|223394
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132848
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	unknown	unknown	gnl\|CDD\|224006
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	unknown	unknown	gnl\|CDD\|377395
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	unknown	unknown	gnl\|CDD\|275064
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	unknown	unknown	gnl\|CDD\|223733
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224870
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293792
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|119407
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	unknown	unknown	gnl\|CDD\|100051
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	unknown	unknown	gnl\|CDD\|235383
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	unknown	unknown	gnl\|CDD\|274892
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	gnl\|CDD\|235028	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional.	1.26188e-100
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|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_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	gnl\|CDD\|376329	pfam00381, PTS-HPr, PTS HPr component phosphorylation site.	1.66602e-32
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	gnl\|CDD\|380294	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX. This protein, PglX, is a site-specific DNA methyltransferase associated BREX (bacteriophage exclusion) type 1 systems. The phage resistance appears not to be through restriction-modification, as phage DNA appears not to get degraded, but it does manage to inhibit phage replication.	7.41689e-18
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	gnl\|CDD\|223394	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription].	0
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132848	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli. Patatin-like phospholipase similar to Z1214 protein of Escherichia coli. This family predominantly consists of bacterial patatin glycoproteins and some representatives from eukaryotes and archaea. The patatin protein accounts for up to 40% of the total soluble protein in potato tubers. Patatin is a storage protein, but it also has the enzymatic activity of a lipid acyl hydrolase, catalyzing the cleavage of fatty acids from membrane lipids. Members of this family have also been found in vertebrates.	2.241e-60
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	gnl\|CDD\|224006	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism].	0
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	gnl\|CDD\|377395	pfam04647, AgrB, Accessory gene regulator B. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein.	4.92858e-22
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	2.18685e-70
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	gnl\|CDD\|275064	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide. Members of this family of short peptides are precursors to thiolactone (unless Cys is replaced by Ser) cyclic autoinducer peptides, used in quorum-sensing systems in Gram-positive bacteria. The best characterized is the AgrD precursor, processed by the AgrB protein. Nearby proteins regularly encountered include a histidine kinase and a response regulator. This model is related to pfam05931 but is newer and currently broader in scope.	4.07974e-08
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	gnl\|CDD\|223733	COG0661, AarF, Predicted unusual protein kinase [General function prediction only].	1.07824e-141
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	gnl\|CDD\|224870	COG1959, COG1959, Predicted transcriptional regulator [Transcription].	4.93588e-10
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293792	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain. Members of the MBL-fold metallohydrolase superfamily are mainly hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) for which this fold was named perform only a small fraction of the activities included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases which can catalyze the hydrolysis of a wide range of beta-lactam antibiotics, hydroxyacylglutathione hydrolases (also called glyoxalase II) which hydrolyze S-d-lactoylglutathione to d-lactate in the second step of the glycoxlase system, AHL lactonases which catalyze the hydrolysis and opening of the homoserine lactone rings of acyl homoserine lactones (AHLs), persulfide dioxygenase which catalyze the oxidation of glutathione persulfide to glutathione and persulfite in the mitochondria, flavodiiron proteins which catalyze the reduction of oxygen and/or nitric oxide to water or nitrous oxide respectively, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J which has both 5'-3' exoribonucleolytic and endonucleolytic activity and ribonuclease Z which catalyzes the endonucleolytic removal of the 3' extension of the majority of tRNA precursors, cyclic nucleotide phosphodiesterases which decompose cyclic adenosine and guanosine 3', 5'-monophosphate (cAMP and cGMP) respectively, insecticide hydrolases, and proteins required for natural transformation competence. The diversity of biological roles is reflected in variations in the active site metallo-chemistry, for example classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, human persulfide dioxygenase ETHE1 is a mono-iron binding member of the superfamily; Arabidopsis thaliana hydroxyacylglutathione hydrolases incorporates iron, manganese, and zinc in its dinuclear metal binding site, and flavodiiron proteins contains a diiron site.	6.95373e-73
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|119407	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs are members of the bacterial autolytic system and carry a signal peptide in their N-termini that allows their transport across the cytoplasmic membrane. However, the bacteriophage MurNAc-LAAs are endolysins since these phage-encoded enzymes break down bacterial peptidoglycan at the terminal stage of the phage reproduction cycle. As opposed to autolysins, almost all endolysins have no signal peptides and their translocation through the cytoplasmic membrane is thought to proceed with the help of phage-encoded holin proteins. The amidase catalytic module is fused to another functional module (cell wall binding module or CWBM) either at the N- or C-terminus, which is responsible for high affinity binding of the protein to the cell wall.	1.53303e-72
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	4.4803e-89
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	gnl\|CDD\|100051	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed by the regeneration of the active site by ionization of the zinc-bound water molecule and removal of a proton from the active site. They are ubiquitous enzymes involved in fundamental processes like photosynthesis, respiration, pH homeostasis and ion transport. There are three evolutionary distinct groups - alpha, beta and gamma carbonic anhydrases - which show no significant sequence identity or structural similarity. Gamma CAs are trimeric enzymes with left-handed parallel beta helix (LbH) structural domain.	6.21398e-81
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	gnl\|CDD\|235383	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.	1.06886e-98
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	gnl\|CDD\|274892	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase. Members of this protein family are predicted radical SAM enzymes universally associated with Six Cysteines in Forty-Five protein, or SCIFF (family TIGR03973), a predicted ribosomal natural product precursor that is nearly universal in the class Clostridia. Similarity of this family to radical SAM maturases (PqqE and subtilosin A maturase) found in the vicinity of other peptide precursors suggests this protein is the SCIFF radical SAM maturase. [Cellular processes, Biosynthesis of natural products].	0
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	4.20668e-39

>NC_009089.1|WP_004454130.1|3193183_3193762_-|accessory-gene-regulator-B-family-protein
MFKRYAEKMTSVLICNNMIDNNESKVYSYGFEILIAFIVNITTMLFIGFLFGKFTYVLFFLMCYCPIRQFSGGYHADNYFRCLLTFIFIILSTILIIENINIDLFKNIIMIIASVSWVGICVLCPIEHRSNPISDREKLVYKKTAIFISTVVLLITILSLSLSIFVDYFTYSAFAMFWIFVMLVLGKLKAKV
>NC_009089.1|WP_003426457.1|3193007_3193154_-|cyclic-lactone-autoinducer-peptide
MKKFIVRFMKFASSLALSTAILSANSTCPWIIHQPKVPKEISNLKKTN
>NC_009089.1|WP_011861666.1|3191323_3192703_-|thioether-cross-link-forming-SCIFF-peptide-maturase
MSMIHKFSMNGYNIVLDVNGGAVHVLDDVAYDLLDFYKEKSKEEILEILKSKYQEEKINEAYEEILNLEKEGLLYTEDTYQYHPSFVHREPVVKALCLNVAHDCNLKCKYCFAAQGDFGGEKELMSFEVGKAAIDYLIANSGSRKNLEIDFFGGEPLMNFEVVKQLVDYGRSVEKDYNKNIRFTITTNGVLLNDEIIDYINENMHNVVLSLDGRKEVNDNMRPTLNDKGSYDITLPRFKKLVEKRSKDKYYYIRGTFTRDNLDFSKDVMHFADLGFKLTSVEPVVGDESNPYALREEDLPKIFEEYEKFAVEYADRQLQGDGFKFFHFMIDLNQGPCVIKRITGCGAGNEYLSVTPNGDIYPCHQFVGNEEFKMANIFDEEIVLPENLKNMFREAHVYTKEECKQCWNKFYCSGGCHANAINFNSDISKPYELGCEMQRKRTECSIMIQAKLMLEGATN
>NC_009089.1|WP_004454132.1|3190797_3191295_-|gamma-carbonic-anhydrase-family-protein
MIRDYLEDKPLIDESVFVAKSADVIGNVKIGKDSSIWYNAVVRGDEGPITIGENTNIQDCSIVHGDTETIIGNNVTVGHRSIVHGCKISDNVLIGMGSIILDNAEIGEYTLIGAGTLITSNKKFPPGVLIMGSPGKVVRELTEEDKKYIDESYEWYLEAAQNQKY
>NC_009089.1|WP_009891005.1|3188835_3190500_-|AarF/ABC1/UbiB-kinase-family-protein
MRISYRNLKRYREIGYVLIKYGFSFIVERLNIEGIAYKIPLFDPPEEIKNMTTGERMKRVLEELGPTYIKIGQILSTRKDLLDQDIIDEISKLRDDVEKFDSNIAIDIFKEEVGLSIEEIFLEFKEEPIAAASIGQVYEGVLKTGEEVIVKIQRPNIEKIIKSDLEILRTIANTLKDLKKDFNLDLVQMIEEFQTQLMRELDYTFEAINATKFSRIFKNSDEVYIPKVYSEYNTKKILVMEKVNGTKLSDVEKIRRLGYNTKTIVEIGVRSFFTQVLSHGFFHADPHPGNIFVVAKNKIAYIDFGMIGIIDNKTLNQLNEIALAGVEKNVDKIIYLLIEMDALNGEADIKGLRQDLLYLIHYYYDISIEKINVTDILNELFRFFRQYKIVMPAQFVTLAKTVITLEGTSRTLNTDFSFGSMGKEFMKHHYKSKFNPKNVVLSSRQNVEEILLDIKTIPKQLKAILKNIERNNIKMQIEDVKMTRLENCIIELTSQISLSLVLASIIVGSSLIIASPNIENNIWIKFTAIAGFFISFIIGLCLVIRSIRSKYKKD
>NC_009089.1|WP_011861665.1|3186372_3188823_-|single-stranded-DNA-specific-exonuclease-RecJ
MKKWILKYKGKIEESEFSKKLNISPEICQILKNRGICTEKDSEIFMNPSLDYLRDPFLMKDMQKAVDRIKLAVEKNEKIWIYGDYDVDGVSSTSILCLYFKSIGYNVDYYIPNRLEEGYGINEDAIKLISSRGCDLIISVDCGITSVSEVNTANDLGIDVIITDHHECQSEIPSAFAVINPKQEDCNYPFDSLCGCGVAFKMIQALTPKEEFKTSMYNYLEIVTLATICDIVPLIDENRIIVKNGLKSMKEGKNIGLRELIKVCGVESDKIGSSHIGFAIGPRINASGRLGYSYLGVELFTTQSQEEAVEIASILEEKNNERQMIEAKMYHEAEEMLKSNSRYNDDKVLVLAKEGWQHGIIGIVASKLTEKYYKPTILLGIENGEATGSARSIKGFNIFEALIKCKDLMTKFGGHEQAAGLSLDSDNVEILANEINKFADYNLTEDDMIENVNVEFELQENVINLNLVEELHKLEPFGLNNPNPRFIVRNYILKDLKVIGKNQQHLKLSIEKEKSYECIGFNMSHLKSMYKVGDKVDVLFQLDENNYMGNRKVQFLLKDIRLARPKSASNDKLSLKLMSKIIPKDTQSLYNISVSDFELFDGNTDINIFDYFEKDTLIISNSINGFYRAMSDISLIDLDFNINYNIIEDDSKNTDKLELIFSPNIDKIDLKRYNNIILYDYLYNKGEYSYIYENKREESEIIKYYNKTDLLYLKNVVSNIVPSRDEFITIYKQALIKKEIDLDMVNIRETFNVIPLKFFTILNVFRELNLLDFNLNYEKNSVLIRILPKPQKKLDLNESLILNNLKNLEKQYNSSY
>NC_009089.1|WP_003426450.1|3185847_3186360_-|adenine-phosphoribosyltransferase
MDLKNFIRNIDDFPKPGIDFKDVTTLFKDGDAFKYAVDSIVEELKDKDVDLVIGPEARGFLMGTPVAYALGVGFVPIRKPGKLPGEVESYEYGLEYGTDTLEIHKDAIKKGQKVAIVDDLLATGGTMEAAAKLVEKLGGEVVSMQFLIELKFLNGREKLSNYDVNSLIKY
>NC_009089.1|WP_003422921.1|3183566_3185774_-|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase
MHDKELQEIIEKIKVYAPNANFEMVEKAYNLAKKAHEGQYRKSGEPYFIHPLAVANILIEMELDIETITAGLLHDVVEDTEYTYEDIKKEFGKEVADLVDGVTKLGQIKYRSKEETQSENLRKMFLAMAKDIRVILIKLADRLHNMRTLKYMPPEKAKYKAKETLEIYGGIAHRLGISKIKWELEDRALRFMDPEGYYDLVSRVSMKRSQREDYIQGIVELLKDKFKDLSIPCDVYGRPKHFYSIYRKMQKKHKTFEEIFDLTAVRILVDNVKDCYAVLGIVHTLWRPIPGRFKDYIAMPKPNMYQSLHTTVVGPDGEPLEIQIRTHEMHNIAENGIAAHWKYKEGISSKESKVEEKLQWLRQMMEWEKDLKDPQEFMDALKEDVFNSQVYVFTPKGDVIELPAESTPIDFAYRVHTNVGNKCVGAKIDGRIVPIDYKLQNGNIVEVLTSSNSNGPSRDWLNIVKTPNAKSRIRQFFKKERREENVDRGNTILEREFKKHDIPQKDPLVEKYMALVAKKFNQPSVEDLIATVGYGGIMSSQVVSKVKDLYLKEVKKAKKEQQIQEEDLNKHNISETEYSKKRKKNASQGIIVKGLDNILVRFAKCCNPLPGDEIVGYITKGRGVAIHRADCPNANNNGDFFQNRLVEVSWSSAGKGKFEAEIQIKAIDRRGIVNEITHIVAMDKLSLNGINARKGKDSIVSINLLVEVNDTEELKILMKKLKAIPGVESIYRMTN
>NC_009089.1|WP_003426448.1|3183092_3183542_-|D-tyrosyl-tRNA(Tyr)-deacylase
MRAVVQRVSSSKVTVDENTIGQINKGLLVLLGVTHDDKSSDVDYMIDKILNLRIFEDENDKMNLSLMDIGGELLVVSQFTLYGDCRKGRRPGFSNAARPELANNLYEEFVKKAKDKGVTVGTGQFAAHMMVELTNDGPVTILLDSSKSF
>NC_009089.1|WP_004454137.1|3182463_3183078_-|MBL-fold-metallo-hydrolase
MIIKKFVDSYFGVNTYVLGDEKTKKCAVIDPGGSLVETLSFVKENELNIEYIILTHGHGDHIGYVKDIKEKTGAKVVAHVDEKELLNDKNKNLSYTMRCGAQEFDADIYVNDKDKLELGELKMTFLHTPGHTQGCMCIRVEDEMFTGDTLFAGSIGRTDLYSGDFNQMEKSLKKLCKYEDAVRVYPGHGPTSTLGVEKKTNPYM
>NC_009089.1|WP_011861667.1|3195903_3196569_+|hypothetical-protein
MKGNIVQYNFADIEEEVYSLDYAIAWNTNEENVNIIPFTNKFCKESIESFCLGKINNFVEILNEGFVENHHYVHLDKMISVPKKKVNLVYQQDTHGYLLRDDNDNLIPAKITSEQSKSISSKMELFCAGEEKCLINILLKADPSYILDVDSIKDKNILNLGYESIDRYKEYNFDDDKILIFFINKKRYSVIMKKTNNSDNDLVSRNNAIKELFTNKAGNLN
>NC_009089.1|WP_011861668.1|3197074_3199777_-|EAL-domain-containing-protein
MKNVSKKFFVCTIIVLITFLCFSKFAIYVFDKQEKKETKVVENMLNVYKNNIILNLTEKFNYSKDLTSVLVSNNYSIDKLKPIADEILKNNSCIYISVVEKYNVAAFFSNSVKKDIINTPIQELNYSYSLANSIKGLVVEGPSKDQFSNGDVFLITNPIYKNGEYWGEITVALDAKKVVDSFNLNKLKESGFEYELWRVHLDNGSKSTIEISTKDFNFSKSHEIKFKLPTVWTLSIVYKNGWNNKNIDFIVFVILLIISILIGVMTFIYIEKKSISKELNQQSLKNLETGILNREGFLIKLQEHLNRKNNEIVLLYICITNYSKFAPVMSFEKRQDYLTHIVKNLDNYIKSSHFIARISEEGFVLALEENCDKNELLNIEKGISLELLRKIKVENKQVFLTIGYGSSRCVDDRKDAESLLLSAIEDYERRFPAMSPIHDFTKKCEDMLDEKKQIVFGEYPDLEINKLSKVIYKYYKKVQRIMYKDYNIDIGNRRGYMRDVEVLIDYNSERMLYLFLIDICKFGKFNELFSIEIGDVILKEVSNKLKTIFSNYLYRINGDVFLGISIDKESYLDTLHKVNEVFNSSLSVEDVLFDVKCNIGICQYPYHGENPYDLLEKVQIALEYAKKDVKSNVKVYDKELTEEIYHENNIIKDLKKGLEEQTLEVWYQPIFNVSKNCYIKAEALIRLRNKEGGYYSAYEVITYAEKHGLIKDVGLYVLKKACDVTTKIKDKNIDFEQMQLNLSVQQIVHKQCANDILSCIENCGLDKKYICVEVTETVLMETFEIVNVTLDKLKKEGISIALDEFGSGFSSINYLANLPIENLKIDKELVEQITYSKKQFELLKTIVQIAKINGMDIVAEGVETKETLDLVVTSGVNLIQGHYFSEPLSEDKFIELMIEE
>NC_009089.1|WP_011861669.1|3199802_3201353_-|GGDEF-domain-containing-protein
MRYKKRNIDKSSELSFQSLAKYFITFYIVIILIILSMFCINTIWVMKKDNQDLLSTTSNRIEDRVGETIKLLNSLSKDNYIIDNSVNGIDKSKELSMYSDEFGYMMICFVDKNIIVWDEEGGNISLAGRDYMQKLFATKKYQVTDSFAAGADGKTLNYTIASPIIKNGNVDGCVFAAIYFDEIKDILKQGKGQQQQNFILFGSENQIMNLTSDETAYGEKYMKLSQKTKYLGTNAKKVEKDMFNNKSGDYWAFENGKLYFMSYKPIKNTNWSLFCKVNFLDIFALNLIPMGAILSVITLVFIILICMEKSFMKKRMEVIDMLLGSVQELEKRIYQTERPSEVDFKEIIQLTSKGLTDGLTGVVTRTVFFDQIYNRVEMEENDKLSVISFVDLDDLKCINDLYGHEIGDMVLKNVGYVLREYEIKYNGLIGRYGGDEFVMLLSGFTSREEVEDLLDEIAIRLHTEVLTDDGIIQTHCSVGAVVCSVKDNKDIDNLLKQADEALYYVKRNGKGNYHLV
>NC_009089.1|WP_003431795.1|3201675_3203388_-|phosphoenolpyruvate--protein-phosphotransferase
MAYKGIGASPGVALGKALVVEHSELVIEKKSIDNVEAEIAKLEDAVAVSKEELVKVKEKASEELGAEEAEIFEAHLLVLEDPELIGSAIDKIKTESVNAEYALNEIKEMFVSMFESMDNEYMKERAADIKDVTNRILRHILGIKVVDLSALSEEVVLIAHDLTPSDTATMNKKMVLGFLTDIGGRTSHTAIMSRTLEIAAIVGLNDITSKVKDGDFVVFNGDTGEVIVNPDEETINKYTELKAKYEDERKALQLLKGKPSVTLDGKHVELAGNIGTPNDIEGLIKNDAEGVGLYRTEFLYMDRDSFPTEEIQYEAYKAVLEGMDGKPIVIRTLDIGGDKELSYLSMEPEMNPFLGYRAIRLCLDRKDIFKTQLRALYRASVHGRLRIMFPMISSLEELLQAKEVVKEVLAELDSEGVAYAKDVEIGMMIEVPSAAVISDVLAKHVDFFSIGTNDLIQYTCAVDRMNQKISYLYNQFNPAVLRLIKTVIDNAHKEGKWAGMCGESAGDQKMIPILLGMGLDEFSMSPISILPARKLITSVKESDMKKLADDVLNMGTAEEIKSYIEKTFNI
>NC_009089.1|WP_003422895.1|3203741_3204002_-|HPr-family-phosphocarrier-protein
MEKVVSIKNASGLHARPAGMFVKKAAEFKSTVEVVAKDKTVNAKSIMGIMSLGLAQGEELKLVVNGEDEEVALAAMVELVESGFGE
>NC_009089.1|WP_003431793.1|3204194_3205406_-|patatin-like-phospholipase-family-protein
MKGLVLEGGGTKGAYQIGAYKALRELGIEFQGVTGTSIGALNGAYIIQNDIEVMEDIWLNYDYTHFMNIDRETYERFKNVDFTTKNLNAVFELINKARKNEGIDISPLRQLMETTLNEDIIRKSKKDFGLVTVWWDKKINPYPLYIEDIPKGRLIDYLIASSSLPIFQTNMMDDKLYLDGMFCDNMPIGLLEDKGYEDVVVIRLIDDFIGKMNLNRHQNINIKTIIPSEYLGGSLNKDRDNVEKNIRLGYLDTMKAYERCTGIKYYFDVEYKYNEEYCFDKFRSMSNETIQYICNLLNIKRDASLRTVMESVIPKLGEVLGLPKDFSYKDLFYCIYEKKLEENNINRIKLYDFNKVIDVVNTNIDSNRNLASNFEVRPKISIKKNKNTKLLTNCIIKDIKNQS
>NC_009089.1|WP_003431790.1|3205637_3207371_-|N-6-DNA-methylase
MDDISQDNFLLSKEYENSLDVDTKKASGIYYTPKIIVDYIVKKTLKNHDIIKNPYPRILDISCGCGNFLLEVYDILYDLFEENIYELKKKYDENYWTVDNIHRHILNYCIYGADIDEKAISILKDSLTNKKVVNDLDESDIKINLFCCDSLKKKWRYKFDYIVGNPPYIGHKKLEKKYKKFLLEKYSEVYKDKADLYFCFYKKIIDILKQGGIGSVITPRYFLESLSGKDLREYIKSNVNVQEIVDFLGANIFKNIGVSSCILTFDKKKTKETYIDVFKIKNEDICINKFETLEELLKSSKFEHFNINQRLLSDEWILVNKDDETFYNKIQEKCKYSLEDIAISFQGIITGCDKAFILSKDDVKLNLVDDKFLKCWIKSKNINKYIVDKSEYRLIYSNDIDNENTNKRILDEIIGLYKTKLENRRECKSGIRKWYELQWGREKLFFERKKIMYPYKSNENRFAIDYDNNFSSADVYSFFIKEEYLDKFSYEYLVGILNSSVYDKYFKITAKKMSKNIYDYYPNKVMKIRIFRDNNYEEIENLSKQIISILLNKSIDKGKVEKLQIKMDNLIMDSLGI
>NC_009089.1|WP_003426473.1|3207410_3207809_-|Rrf2-family-transcriptional-regulator
MISEDVDYSIRIIRAIFNNGEDKPIDAKMILKSEDIPILTLYRLLRKLCANNILTFNKEDGKTYMLNVSLDTISLRTIVEVIDGKIYINKCTRYVSNCSNCLKGCKVNRELLEIEKEIYKLLSRKSIRQILE
>NC_009089.1|WP_004454122.1|3207811_3209359_-|EAL-domain-containing-protein
MNKNSMTRIYSLNKIIFIIIGILGIVLLTRHIEVDIKVLILILLTLFSINVFISYLKIKLYEDKINLGLINNSDKFINITKDENFLKHVQNYIISNEKENCVMACFDLCRLKLINDIYGYELGDEVLNNILSNLKNYFGKEAIYGKLKSDVFVLIIKLENREQKIPYLVNLIKNKIVILSQIDSFKMDINIEASIGIYKFNNNEIDIKKAIDNADMARLKSKGLKHIEYVEFDNAMEEEIQSIMKIERDLFLAIKNKEFVIHYQPKVDSSTGNIIGSEALIRWLHPSLGMVGPNKFIPIAEKNGLINNIGRWLIQEVFITINKWISEGINVLPVSINLSRVELYKNDLVDFFKLMFNTYNIPKELIELEITETTALRDVKFISERLYEIKSLGMNISLDDFGVGNSNFINLKGIPLDIIKIDRSLILDIVTNTKTKFMVKAIVNLSHDLNVTVICEGVEDMHQVKVLSELGCNFIQGYVFFKPLDEMNYKKLLTDGSYINLKDTLLDKCMTVEEE
>NC_009089.1|WP_011861670.1|3209673_3210579_-|N-acetylmuramoyl-L-alanine-amidase
MKKKLLDGKITLIICKSVKIYTKKDEEMSKGNNNNNSRNKSKKTSHLNRKKRKLNKKKLAVLICFTVLFLFIAFKATQGVVALVKSMDKSNKTSQQQNVNSEQFDLGNEEENKKKKYTVFIDPGHGGNDKGTESKTSNRYEKDLNLQIAKKLANKLSKQKDIQVVVSRTDDTYISLKDRAILANNSSADVLVSIHLNAEKNGNTATGIETWYRNKATDGSKELAQTVQSTIVSYVKVRDRGIVENNFEVLRESNMPAILIECGFLTTPSEEQKIINEKYQDQLAEGIVQGVLSYLDSKGNK

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Crispr_ID: NC_009089_16

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_16

3194717-3195006

Orphan

Consensus_repeat	Method
TTTCTTTTACAGCTTCTAAACATAT	CRISPRCasFinder

4 spacers

The CRISPR arrays of NC_009089_16

>merge|NC_009089|16|3194717-3195006|CRISPRCasFinder
CAATTCTTACTGCTTCCAAACAAATCTCTTCTGTTTGCTTATTTACATACTGTAGAGCCATATAACTTCTTTTTACTGCTTCCATGCATATTTTTTCTGTCTGTTCATTTACATAATACAATGCAAAGTCATTCTGTTTTACTGCTTCTATACATATTTCTTCAGTTTGCTCTTTTACACAAGATAGTGCACTGTAGTTTTCTTTTACAGCTTCTAAACATATACTATTACTTTGTTCCTTTACATAAGCTAAAGATTTTCCATCTTTTTTTACAGCTTCTAAACATATG

>NC_009089|16|14|3194717-3195006|CRISPRCasFinder
CAATTCTTACTGCTTCCAAACAAAT	CTCTTCTGTTTGCTTATTTACATACTGTAGAGCCATATAAC
TTCTTTTTACTGCTTCCATGCATAT	TTTTTCTGTCTGTTCATTTACATAATACAATGCAAAGTCAT
TCTGTTTTACTGCTTCTATACATAT	TTCTTCAGTTTGCTCTTTTACACAAGATAGTGCACTGTAGT
TTTCTTTTACAGCTTCTAAACATAT	ACTATTACTTTGTTCCTTTACATAAGCTAAAGATTTTCCAT
CTTTTTTTACAGCTTCTAAACATATG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861667.1\|3195903_3196569_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|235028
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|single-stranded-DNA-specific-exonuclease-RecJ	unknown	unknown	gnl\|CDD\|273193
NC_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	unknown	unknown	gnl\|CDD\|376329
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	unknown	unknown	gnl\|CDD\|380294
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|223394
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132848
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	unknown	unknown	gnl\|CDD\|224006
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	unknown	unknown	gnl\|CDD\|377395
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	unknown	unknown	gnl\|CDD\|275064
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	unknown	unknown	gnl\|CDD\|223733
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224870
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293792
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|119407
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	unknown	unknown	gnl\|CDD\|100051
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	unknown	unknown	gnl\|CDD\|235383
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	unknown	unknown	gnl\|CDD\|274892
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003426450.1\|3185847_3186360_-\|adenine-phosphoribosyltransferase	gnl\|CDD\|235028	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional.	1.26188e-100
NC_009089.1\|WP_011861665.1\|3186372_3188823_-\|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_009089.1\|WP_003422895.1\|3203741_3204002_-\|HPr-family-phosphocarrier-protein	gnl\|CDD\|376329	pfam00381, PTS-HPr, PTS HPr component phosphorylation site.	1.66602e-32
NC_009089.1\|WP_003431790.1\|3205637_3207371_-\|N-6-DNA-methylase	gnl\|CDD\|380294	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX. This protein, PglX, is a site-specific DNA methyltransferase associated BREX (bacteriophage exclusion) type 1 systems. The phage resistance appears not to be through restriction-modification, as phage DNA appears not to get degraded, but it does manage to inhibit phage replication.	7.41689e-18
NC_009089.1\|WP_003422921.1\|3183566_3185774_-\|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase	gnl\|CDD\|223394	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription].	0
NC_009089.1\|WP_003431793.1\|3204194_3205406_-\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132848	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli. Patatin-like phospholipase similar to Z1214 protein of Escherichia coli. This family predominantly consists of bacterial patatin glycoproteins and some representatives from eukaryotes and archaea. The patatin protein accounts for up to 40% of the total soluble protein in potato tubers. Patatin is a storage protein, but it also has the enzymatic activity of a lipid acyl hydrolase, catalyzing the cleavage of fatty acids from membrane lipids. Members of this family have also been found in vertebrates.	2.241e-60
NC_009089.1\|WP_003431795.1\|3201675_3203388_-\|phosphoenolpyruvate--protein-phosphotransferase	gnl\|CDD\|224006	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism].	0
NC_009089.1\|WP_004454130.1\|3193183_3193762_-\|accessory-gene-regulator-B-family-protein	gnl\|CDD\|377395	pfam04647, AgrB, Accessory gene regulator B. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein.	4.92858e-22
NC_009089.1\|WP_011861668.1\|3197074_3199777_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	2.18685e-70
NC_009089.1\|WP_003426457.1\|3193007_3193154_-\|cyclic-lactone-autoinducer-peptide	gnl\|CDD\|275064	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide. Members of this family of short peptides are precursors to thiolactone (unless Cys is replaced by Ser) cyclic autoinducer peptides, used in quorum-sensing systems in Gram-positive bacteria. The best characterized is the AgrD precursor, processed by the AgrB protein. Nearby proteins regularly encountered include a histidine kinase and a response regulator. This model is related to pfam05931 but is newer and currently broader in scope.	4.07974e-08
NC_009089.1\|WP_009891005.1\|3188835_3190500_-\|AarF/ABC1/UbiB-kinase-family-protein	gnl\|CDD\|223733	COG0661, AarF, Predicted unusual protein kinase [General function prediction only].	1.07824e-141
NC_009089.1\|WP_003426473.1\|3207410_3207809_-\|Rrf2-family-transcriptional-regulator	gnl\|CDD\|224870	COG1959, COG1959, Predicted transcriptional regulator [Transcription].	4.93588e-10
NC_009089.1\|WP_004454137.1\|3182463_3183078_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293792	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain. Members of the MBL-fold metallohydrolase superfamily are mainly hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) for which this fold was named perform only a small fraction of the activities included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases which can catalyze the hydrolysis of a wide range of beta-lactam antibiotics, hydroxyacylglutathione hydrolases (also called glyoxalase II) which hydrolyze S-d-lactoylglutathione to d-lactate in the second step of the glycoxlase system, AHL lactonases which catalyze the hydrolysis and opening of the homoserine lactone rings of acyl homoserine lactones (AHLs), persulfide dioxygenase which catalyze the oxidation of glutathione persulfide to glutathione and persulfite in the mitochondria, flavodiiron proteins which catalyze the reduction of oxygen and/or nitric oxide to water or nitrous oxide respectively, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J which has both 5'-3' exoribonucleolytic and endonucleolytic activity and ribonuclease Z which catalyzes the endonucleolytic removal of the 3' extension of the majority of tRNA precursors, cyclic nucleotide phosphodiesterases which decompose cyclic adenosine and guanosine 3', 5'-monophosphate (cAMP and cGMP) respectively, insecticide hydrolases, and proteins required for natural transformation competence. The diversity of biological roles is reflected in variations in the active site metallo-chemistry, for example classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, human persulfide dioxygenase ETHE1 is a mono-iron binding member of the superfamily; Arabidopsis thaliana hydroxyacylglutathione hydrolases incorporates iron, manganese, and zinc in its dinuclear metal binding site, and flavodiiron proteins contains a diiron site.	6.95373e-73
NC_009089.1\|WP_011861670.1\|3209673_3210579_-\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|119407	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs are members of the bacterial autolytic system and carry a signal peptide in their N-termini that allows their transport across the cytoplasmic membrane. However, the bacteriophage MurNAc-LAAs are endolysins since these phage-encoded enzymes break down bacterial peptidoglycan at the terminal stage of the phage reproduction cycle. As opposed to autolysins, almost all endolysins have no signal peptides and their translocation through the cytoplasmic membrane is thought to proceed with the help of phage-encoded holin proteins. The amidase catalytic module is fused to another functional module (cell wall binding module or CWBM) either at the N- or C-terminus, which is responsible for high affinity binding of the protein to the cell wall.	1.53303e-72
NC_009089.1\|WP_004454122.1\|3207811_3209359_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	4.4803e-89
NC_009089.1\|WP_004454132.1\|3190797_3191295_-\|gamma-carbonic-anhydrase-family-protein	gnl\|CDD\|100051	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed by the regeneration of the active site by ionization of the zinc-bound water molecule and removal of a proton from the active site. They are ubiquitous enzymes involved in fundamental processes like photosynthesis, respiration, pH homeostasis and ion transport. There are three evolutionary distinct groups - alpha, beta and gamma carbonic anhydrases - which show no significant sequence identity or structural similarity. Gamma CAs are trimeric enzymes with left-handed parallel beta helix (LbH) structural domain.	6.21398e-81
NC_009089.1\|WP_003426448.1\|3183092_3183542_-\|D-tyrosyl-tRNA(Tyr)-deacylase	gnl\|CDD\|235383	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional.	1.06886e-98
NC_009089.1\|WP_011861666.1\|3191323_3192703_-\|thioether-cross-link-forming-SCIFF-peptide-maturase	gnl\|CDD\|274892	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase. Members of this protein family are predicted radical SAM enzymes universally associated with Six Cysteines in Forty-Five protein, or SCIFF (family TIGR03973), a predicted ribosomal natural product precursor that is nearly universal in the class Clostridia. Similarity of this family to radical SAM maturases (PqqE and subtilosin A maturase) found in the vicinity of other peptide precursors suggests this protein is the SCIFF radical SAM maturase. [Cellular processes, Biosynthesis of natural products].	0
NC_009089.1\|WP_011861669.1\|3199802_3201353_-\|GGDEF-domain-containing-protein	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	4.20668e-39

>NC_009089.1|WP_004454130.1|3193183_3193762_-|accessory-gene-regulator-B-family-protein
MFKRYAEKMTSVLICNNMIDNNESKVYSYGFEILIAFIVNITTMLFIGFLFGKFTYVLFFLMCYCPIRQFSGGYHADNYFRCLLTFIFIILSTILIIENINIDLFKNIIMIIASVSWVGICVLCPIEHRSNPISDREKLVYKKTAIFISTVVLLITILSLSLSIFVDYFTYSAFAMFWIFVMLVLGKLKAKV
>NC_009089.1|WP_003426457.1|3193007_3193154_-|cyclic-lactone-autoinducer-peptide
MKKFIVRFMKFASSLALSTAILSANSTCPWIIHQPKVPKEISNLKKTN
>NC_009089.1|WP_011861666.1|3191323_3192703_-|thioether-cross-link-forming-SCIFF-peptide-maturase
MSMIHKFSMNGYNIVLDVNGGAVHVLDDVAYDLLDFYKEKSKEEILEILKSKYQEEKINEAYEEILNLEKEGLLYTEDTYQYHPSFVHREPVVKALCLNVAHDCNLKCKYCFAAQGDFGGEKELMSFEVGKAAIDYLIANSGSRKNLEIDFFGGEPLMNFEVVKQLVDYGRSVEKDYNKNIRFTITTNGVLLNDEIIDYINENMHNVVLSLDGRKEVNDNMRPTLNDKGSYDITLPRFKKLVEKRSKDKYYYIRGTFTRDNLDFSKDVMHFADLGFKLTSVEPVVGDESNPYALREEDLPKIFEEYEKFAVEYADRQLQGDGFKFFHFMIDLNQGPCVIKRITGCGAGNEYLSVTPNGDIYPCHQFVGNEEFKMANIFDEEIVLPENLKNMFREAHVYTKEECKQCWNKFYCSGGCHANAINFNSDISKPYELGCEMQRKRTECSIMIQAKLMLEGATN
>NC_009089.1|WP_004454132.1|3190797_3191295_-|gamma-carbonic-anhydrase-family-protein
MIRDYLEDKPLIDESVFVAKSADVIGNVKIGKDSSIWYNAVVRGDEGPITIGENTNIQDCSIVHGDTETIIGNNVTVGHRSIVHGCKISDNVLIGMGSIILDNAEIGEYTLIGAGTLITSNKKFPPGVLIMGSPGKVVRELTEEDKKYIDESYEWYLEAAQNQKY
>NC_009089.1|WP_009891005.1|3188835_3190500_-|AarF/ABC1/UbiB-kinase-family-protein
MRISYRNLKRYREIGYVLIKYGFSFIVERLNIEGIAYKIPLFDPPEEIKNMTTGERMKRVLEELGPTYIKIGQILSTRKDLLDQDIIDEISKLRDDVEKFDSNIAIDIFKEEVGLSIEEIFLEFKEEPIAAASIGQVYEGVLKTGEEVIVKIQRPNIEKIIKSDLEILRTIANTLKDLKKDFNLDLVQMIEEFQTQLMRELDYTFEAINATKFSRIFKNSDEVYIPKVYSEYNTKKILVMEKVNGTKLSDVEKIRRLGYNTKTIVEIGVRSFFTQVLSHGFFHADPHPGNIFVVAKNKIAYIDFGMIGIIDNKTLNQLNEIALAGVEKNVDKIIYLLIEMDALNGEADIKGLRQDLLYLIHYYYDISIEKINVTDILNELFRFFRQYKIVMPAQFVTLAKTVITLEGTSRTLNTDFSFGSMGKEFMKHHYKSKFNPKNVVLSSRQNVEEILLDIKTIPKQLKAILKNIERNNIKMQIEDVKMTRLENCIIELTSQISLSLVLASIIVGSSLIIASPNIENNIWIKFTAIAGFFISFIIGLCLVIRSIRSKYKKD
>NC_009089.1|WP_011861665.1|3186372_3188823_-|single-stranded-DNA-specific-exonuclease-RecJ
MKKWILKYKGKIEESEFSKKLNISPEICQILKNRGICTEKDSEIFMNPSLDYLRDPFLMKDMQKAVDRIKLAVEKNEKIWIYGDYDVDGVSSTSILCLYFKSIGYNVDYYIPNRLEEGYGINEDAIKLISSRGCDLIISVDCGITSVSEVNTANDLGIDVIITDHHECQSEIPSAFAVINPKQEDCNYPFDSLCGCGVAFKMIQALTPKEEFKTSMYNYLEIVTLATICDIVPLIDENRIIVKNGLKSMKEGKNIGLRELIKVCGVESDKIGSSHIGFAIGPRINASGRLGYSYLGVELFTTQSQEEAVEIASILEEKNNERQMIEAKMYHEAEEMLKSNSRYNDDKVLVLAKEGWQHGIIGIVASKLTEKYYKPTILLGIENGEATGSARSIKGFNIFEALIKCKDLMTKFGGHEQAAGLSLDSDNVEILANEINKFADYNLTEDDMIENVNVEFELQENVINLNLVEELHKLEPFGLNNPNPRFIVRNYILKDLKVIGKNQQHLKLSIEKEKSYECIGFNMSHLKSMYKVGDKVDVLFQLDENNYMGNRKVQFLLKDIRLARPKSASNDKLSLKLMSKIIPKDTQSLYNISVSDFELFDGNTDINIFDYFEKDTLIISNSINGFYRAMSDISLIDLDFNINYNIIEDDSKNTDKLELIFSPNIDKIDLKRYNNIILYDYLYNKGEYSYIYENKREESEIIKYYNKTDLLYLKNVVSNIVPSRDEFITIYKQALIKKEIDLDMVNIRETFNVIPLKFFTILNVFRELNLLDFNLNYEKNSVLIRILPKPQKKLDLNESLILNNLKNLEKQYNSSY
>NC_009089.1|WP_003426450.1|3185847_3186360_-|adenine-phosphoribosyltransferase
MDLKNFIRNIDDFPKPGIDFKDVTTLFKDGDAFKYAVDSIVEELKDKDVDLVIGPEARGFLMGTPVAYALGVGFVPIRKPGKLPGEVESYEYGLEYGTDTLEIHKDAIKKGQKVAIVDDLLATGGTMEAAAKLVEKLGGEVVSMQFLIELKFLNGREKLSNYDVNSLIKY
>NC_009089.1|WP_003422921.1|3183566_3185774_-|bifunctional-(p)ppGpp-synthetase/guanosine-3',5'-bis(diphosphate)-3'-pyrophosphohydrolase
MHDKELQEIIEKIKVYAPNANFEMVEKAYNLAKKAHEGQYRKSGEPYFIHPLAVANILIEMELDIETITAGLLHDVVEDTEYTYEDIKKEFGKEVADLVDGVTKLGQIKYRSKEETQSENLRKMFLAMAKDIRVILIKLADRLHNMRTLKYMPPEKAKYKAKETLEIYGGIAHRLGISKIKWELEDRALRFMDPEGYYDLVSRVSMKRSQREDYIQGIVELLKDKFKDLSIPCDVYGRPKHFYSIYRKMQKKHKTFEEIFDLTAVRILVDNVKDCYAVLGIVHTLWRPIPGRFKDYIAMPKPNMYQSLHTTVVGPDGEPLEIQIRTHEMHNIAENGIAAHWKYKEGISSKESKVEEKLQWLRQMMEWEKDLKDPQEFMDALKEDVFNSQVYVFTPKGDVIELPAESTPIDFAYRVHTNVGNKCVGAKIDGRIVPIDYKLQNGNIVEVLTSSNSNGPSRDWLNIVKTPNAKSRIRQFFKKERREENVDRGNTILEREFKKHDIPQKDPLVEKYMALVAKKFNQPSVEDLIATVGYGGIMSSQVVSKVKDLYLKEVKKAKKEQQIQEEDLNKHNISETEYSKKRKKNASQGIIVKGLDNILVRFAKCCNPLPGDEIVGYITKGRGVAIHRADCPNANNNGDFFQNRLVEVSWSSAGKGKFEAEIQIKAIDRRGIVNEITHIVAMDKLSLNGINARKGKDSIVSINLLVEVNDTEELKILMKKLKAIPGVESIYRMTN
>NC_009089.1|WP_003426448.1|3183092_3183542_-|D-tyrosyl-tRNA(Tyr)-deacylase
MRAVVQRVSSSKVTVDENTIGQINKGLLVLLGVTHDDKSSDVDYMIDKILNLRIFEDENDKMNLSLMDIGGELLVVSQFTLYGDCRKGRRPGFSNAARPELANNLYEEFVKKAKDKGVTVGTGQFAAHMMVELTNDGPVTILLDSSKSF
>NC_009089.1|WP_004454137.1|3182463_3183078_-|MBL-fold-metallo-hydrolase
MIIKKFVDSYFGVNTYVLGDEKTKKCAVIDPGGSLVETLSFVKENELNIEYIILTHGHGDHIGYVKDIKEKTGAKVVAHVDEKELLNDKNKNLSYTMRCGAQEFDADIYVNDKDKLELGELKMTFLHTPGHTQGCMCIRVEDEMFTGDTLFAGSIGRTDLYSGDFNQMEKSLKKLCKYEDAVRVYPGHGPTSTLGVEKKTNPYM
>NC_009089.1|WP_011861667.1|3195903_3196569_+|hypothetical-protein
MKGNIVQYNFADIEEEVYSLDYAIAWNTNEENVNIIPFTNKFCKESIESFCLGKINNFVEILNEGFVENHHYVHLDKMISVPKKKVNLVYQQDTHGYLLRDDNDNLIPAKITSEQSKSISSKMELFCAGEEKCLINILLKADPSYILDVDSIKDKNILNLGYESIDRYKEYNFDDDKILIFFINKKRYSVIMKKTNNSDNDLVSRNNAIKELFTNKAGNLN
>NC_009089.1|WP_011861668.1|3197074_3199777_-|EAL-domain-containing-protein
MKNVSKKFFVCTIIVLITFLCFSKFAIYVFDKQEKKETKVVENMLNVYKNNIILNLTEKFNYSKDLTSVLVSNNYSIDKLKPIADEILKNNSCIYISVVEKYNVAAFFSNSVKKDIINTPIQELNYSYSLANSIKGLVVEGPSKDQFSNGDVFLITNPIYKNGEYWGEITVALDAKKVVDSFNLNKLKESGFEYELWRVHLDNGSKSTIEISTKDFNFSKSHEIKFKLPTVWTLSIVYKNGWNNKNIDFIVFVILLIISILIGVMTFIYIEKKSISKELNQQSLKNLETGILNREGFLIKLQEHLNRKNNEIVLLYICITNYSKFAPVMSFEKRQDYLTHIVKNLDNYIKSSHFIARISEEGFVLALEENCDKNELLNIEKGISLELLRKIKVENKQVFLTIGYGSSRCVDDRKDAESLLLSAIEDYERRFPAMSPIHDFTKKCEDMLDEKKQIVFGEYPDLEINKLSKVIYKYYKKVQRIMYKDYNIDIGNRRGYMRDVEVLIDYNSERMLYLFLIDICKFGKFNELFSIEIGDVILKEVSNKLKTIFSNYLYRINGDVFLGISIDKESYLDTLHKVNEVFNSSLSVEDVLFDVKCNIGICQYPYHGENPYDLLEKVQIALEYAKKDVKSNVKVYDKELTEEIYHENNIIKDLKKGLEEQTLEVWYQPIFNVSKNCYIKAEALIRLRNKEGGYYSAYEVITYAEKHGLIKDVGLYVLKKACDVTTKIKDKNIDFEQMQLNLSVQQIVHKQCANDILSCIENCGLDKKYICVEVTETVLMETFEIVNVTLDKLKKEGISIALDEFGSGFSSINYLANLPIENLKIDKELVEQITYSKKQFELLKTIVQIAKINGMDIVAEGVETKETLDLVVTSGVNLIQGHYFSEPLSEDKFIELMIEE
>NC_009089.1|WP_011861669.1|3199802_3201353_-|GGDEF-domain-containing-protein
MRYKKRNIDKSSELSFQSLAKYFITFYIVIILIILSMFCINTIWVMKKDNQDLLSTTSNRIEDRVGETIKLLNSLSKDNYIIDNSVNGIDKSKELSMYSDEFGYMMICFVDKNIIVWDEEGGNISLAGRDYMQKLFATKKYQVTDSFAAGADGKTLNYTIASPIIKNGNVDGCVFAAIYFDEIKDILKQGKGQQQQNFILFGSENQIMNLTSDETAYGEKYMKLSQKTKYLGTNAKKVEKDMFNNKSGDYWAFENGKLYFMSYKPIKNTNWSLFCKVNFLDIFALNLIPMGAILSVITLVFIILICMEKSFMKKRMEVIDMLLGSVQELEKRIYQTERPSEVDFKEIIQLTSKGLTDGLTGVVTRTVFFDQIYNRVEMEENDKLSVISFVDLDDLKCINDLYGHEIGDMVLKNVGYVLREYEIKYNGLIGRYGGDEFVMLLSGFTSREEVEDLLDEIAIRLHTEVLTDDGIIQTHCSVGAVVCSVKDNKDIDNLLKQADEALYYVKRNGKGNYHLV
>NC_009089.1|WP_003431795.1|3201675_3203388_-|phosphoenolpyruvate--protein-phosphotransferase
MAYKGIGASPGVALGKALVVEHSELVIEKKSIDNVEAEIAKLEDAVAVSKEELVKVKEKASEELGAEEAEIFEAHLLVLEDPELIGSAIDKIKTESVNAEYALNEIKEMFVSMFESMDNEYMKERAADIKDVTNRILRHILGIKVVDLSALSEEVVLIAHDLTPSDTATMNKKMVLGFLTDIGGRTSHTAIMSRTLEIAAIVGLNDITSKVKDGDFVVFNGDTGEVIVNPDEETINKYTELKAKYEDERKALQLLKGKPSVTLDGKHVELAGNIGTPNDIEGLIKNDAEGVGLYRTEFLYMDRDSFPTEEIQYEAYKAVLEGMDGKPIVIRTLDIGGDKELSYLSMEPEMNPFLGYRAIRLCLDRKDIFKTQLRALYRASVHGRLRIMFPMISSLEELLQAKEVVKEVLAELDSEGVAYAKDVEIGMMIEVPSAAVISDVLAKHVDFFSIGTNDLIQYTCAVDRMNQKISYLYNQFNPAVLRLIKTVIDNAHKEGKWAGMCGESAGDQKMIPILLGMGLDEFSMSPISILPARKLITSVKESDMKKLADDVLNMGTAEEIKSYIEKTFNI
>NC_009089.1|WP_003422895.1|3203741_3204002_-|HPr-family-phosphocarrier-protein
MEKVVSIKNASGLHARPAGMFVKKAAEFKSTVEVVAKDKTVNAKSIMGIMSLGLAQGEELKLVVNGEDEEVALAAMVELVESGFGE
>NC_009089.1|WP_003431793.1|3204194_3205406_-|patatin-like-phospholipase-family-protein
MKGLVLEGGGTKGAYQIGAYKALRELGIEFQGVTGTSIGALNGAYIIQNDIEVMEDIWLNYDYTHFMNIDRETYERFKNVDFTTKNLNAVFELINKARKNEGIDISPLRQLMETTLNEDIIRKSKKDFGLVTVWWDKKINPYPLYIEDIPKGRLIDYLIASSSLPIFQTNMMDDKLYLDGMFCDNMPIGLLEDKGYEDVVVIRLIDDFIGKMNLNRHQNINIKTIIPSEYLGGSLNKDRDNVEKNIRLGYLDTMKAYERCTGIKYYFDVEYKYNEEYCFDKFRSMSNETIQYICNLLNIKRDASLRTVMESVIPKLGEVLGLPKDFSYKDLFYCIYEKKLEENNINRIKLYDFNKVIDVVNTNIDSNRNLASNFEVRPKISIKKNKNTKLLTNCIIKDIKNQS
>NC_009089.1|WP_003431790.1|3205637_3207371_-|N-6-DNA-methylase
MDDISQDNFLLSKEYENSLDVDTKKASGIYYTPKIIVDYIVKKTLKNHDIIKNPYPRILDISCGCGNFLLEVYDILYDLFEENIYELKKKYDENYWTVDNIHRHILNYCIYGADIDEKAISILKDSLTNKKVVNDLDESDIKINLFCCDSLKKKWRYKFDYIVGNPPYIGHKKLEKKYKKFLLEKYSEVYKDKADLYFCFYKKIIDILKQGGIGSVITPRYFLESLSGKDLREYIKSNVNVQEIVDFLGANIFKNIGVSSCILTFDKKKTKETYIDVFKIKNEDICINKFETLEELLKSSKFEHFNINQRLLSDEWILVNKDDETFYNKIQEKCKYSLEDIAISFQGIITGCDKAFILSKDDVKLNLVDDKFLKCWIKSKNINKYIVDKSEYRLIYSNDIDNENTNKRILDEIIGLYKTKLENRRECKSGIRKWYELQWGREKLFFERKKIMYPYKSNENRFAIDYDNNFSSADVYSFFIKEEYLDKFSYEYLVGILNSSVYDKYFKITAKKMSKNIYDYYPNKVMKIRIFRDNNYEEIENLSKQIISILLNKSIDKGKVEKLQIKMDNLIMDSLGI
>NC_009089.1|WP_003426473.1|3207410_3207809_-|Rrf2-family-transcriptional-regulator
MISEDVDYSIRIIRAIFNNGEDKPIDAKMILKSEDIPILTLYRLLRKLCANNILTFNKEDGKTYMLNVSLDTISLRTIVEVIDGKIYINKCTRYVSNCSNCLKGCKVNRELLEIEKEIYKLLSRKSIRQILE
>NC_009089.1|WP_004454122.1|3207811_3209359_-|EAL-domain-containing-protein
MNKNSMTRIYSLNKIIFIIIGILGIVLLTRHIEVDIKVLILILLTLFSINVFISYLKIKLYEDKINLGLINNSDKFINITKDENFLKHVQNYIISNEKENCVMACFDLCRLKLINDIYGYELGDEVLNNILSNLKNYFGKEAIYGKLKSDVFVLIIKLENREQKIPYLVNLIKNKIVILSQIDSFKMDINIEASIGIYKFNNNEIDIKKAIDNADMARLKSKGLKHIEYVEFDNAMEEEIQSIMKIERDLFLAIKNKEFVIHYQPKVDSSTGNIIGSEALIRWLHPSLGMVGPNKFIPIAEKNGLINNIGRWLIQEVFITINKWISEGINVLPVSINLSRVELYKNDLVDFFKLMFNTYNIPKELIELEITETTALRDVKFISERLYEIKSLGMNISLDDFGVGNSNFINLKGIPLDIIKIDRSLILDIVTNTKTKFMVKAIVNLSHDLNVTVICEGVEDMHQVKVLSELGCNFIQGYVFFKPLDEMNYKKLLTDGSYINLKDTLLDKCMTVEEE
>NC_009089.1|WP_011861670.1|3209673_3210579_-|N-acetylmuramoyl-L-alanine-amidase
MKKKLLDGKITLIICKSVKIYTKKDEEMSKGNNNNNSRNKSKKTSHLNRKKRKLNKKKLAVLICFTVLFLFIAFKATQGVVALVKSMDKSNKTSQQQNVNSEQFDLGNEEENKKKKYTVFIDPGHGGNDKGTESKTSNRYEKDLNLQIAKKLANKLSKQKDIQVVVSRTDDTYISLKDRAILANNSSADVLVSIHLNAEKNGNTATGIETWYRNKATDGSKELAQTVQSTIVSYVKVRDRGIVENNFEVLRESNMPAILIECGFLTTPSEEQKIINEKYQDQLAEGIVQGVLSYLDSKGNK

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Crispr_ID: NC_009089_18

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_18

3303866-3304077

Orphan

Consensus_repeat	Method
TCTTCTGATGGTGGTACTGGAGGATT	CRISPRCasFinder

3 spacers

The CRISPR arrays of NC_009089_18

>merge|NC_009089|18|3303866-3304077|CRISPRCasFinder
TCTTCTGATGGTGGTACTGGAGGATTCAATACCTCTGGTATTGGCGGATTTATTATATCTTCTGATGGTGGTACTGGTGGATTTATAACTATAGTATCCTCTGTATCAGATGAACTTGATGGTTTCCTTGGTTTATCTGTGCTTGGTGGTACTGGTGGATTTACTATTGGTTCATCTGTATTTGGTGGTGCTGGTGGATTTACTGGTGGATT

>NC_009089|18|16|3303866-3304077|CRISPRCasFinder
TCTTCTGATGGTGGTACTGGAGGATT	CAATACCTCTGGTATTGGCGGATTTATTATA
TCTTCTGATGGTGGTACTGGTGGATT	TATAACTATAGTATCCTCTGTATCAGATGAACTTGATGGTTTCCTTGGTTTA
TCTGTGCTTGGTGGTACTGGTGGATT	TACTATTGGTTCATCTGTATTTGGT
GGTGCTGGTGGATTTACTGGTGGATT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_003436142.1\|3299416_3299863_-\|winged-helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224759
NC_009089.1\|WP_011861711.1\|3322276_3323881_-\|amidohydrolase	unknown	unknown	gnl\|CDD\|238625
NC_009089.1\|WP_003436121.1\|3314563_3315754_-\|amidohydrolase	unknown	unknown	gnl\|CDD\|349882
NC_009089.1\|WP_011861704.1\|3298320_3299415_-\|oxidoreductase	unknown	unknown	gnl\|CDD\|239201
NC_009089.1\|WP_003436120.1\|3315992_3317081_-\|membrane-protein	unknown	unknown	gnl\|CDD\|226458
NC_009089.1\|WP_011861709.1\|3318177_3319683_-\|histidine-kinase	unknown	unknown	gnl\|CDD\|340432
NC_009089.1\|WP_011861702.1\|3292793_3293300_-\|nucleoside-recognition-protein	unknown	unknown	gnl\|CDD\|182513
NC_009089.1\|WP_003436150.1\|3295402_3296779_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861706.1\|3302612_3303275_-\|zinc-metalloprotease-Zmp1	unknown	unknown	gnl\|CDD\|380333
NC_009089.1\|WP_011861710.1\|3320189_3321461_-\|serine--tRNA-ligase	unknown	unknown	gnl\|CDD\|235461
NC_009089.1\|WP_003436139.1\|3300168_3301359_+\|pyridoxal-phosphate-dependent-aminotransferase	unknown	unknown	gnl\|CDD\|180720
NC_009089.1\|WP_009898004.1\|3308696_3311471_-\|calcium-translocating-P-type-ATPase,-PMCA-type	unknown	unknown	gnl\|CDD\|223550
NC_009089.1\|WP_009897998.1\|3301528_3302491_+\|EamA-family-transporter	unknown	unknown	gnl\|CDD\|273359
NC_009089.1\|WP_003426667.1\|3306893_3308072_-\|cation-transporter	unknown	unknown	gnl\|CDD\|223131
NC_009089.1\|WP_003436123.1\|3311642_3312899_-\|serine-hydroxymethyltransferase	unknown	unknown	gnl\|CDD\|234571
NC_009089.1\|WP_003436119.1\|3317365_3318064_-\|response-regulator	unknown	unknown	gnl\|CDD\|381091
NC_009089.1\|WP_003436147.1\|3297714_3298245_-\|flavodoxin	unknown	unknown	gnl\|CDD\|378898
NC_009089.1\|WP_011861703.1\|3293962_3295135_-\|M20-family-metallopeptidase	unknown	unknown	gnl\|CDD\|349881
NC_009089.1\|WP_003431751.1\|3293301_3293949_-\|membrane-protein	unknown	unknown	gnl\|CDD\|225851
NC_009089.1\|WP_009891132.1\|3312970_3314473_-\|AbgT-family-transporter	unknown	unknown	gnl\|CDD\|225525

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003436142.1\|3299416_3299863_-\|winged-helix-turn-helix-transcriptional-regulator	gnl\|CDD\|224759	COG1846, MarR, Transcriptional regulators [Transcription].	6.66859e-18
NC_009089.1\|WP_011861711.1\|3322276_3323881_-\|amidohydrolase	gnl\|CDD\|238625	cd01300, YtcJ_like, YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling.	6.37483e-156
NC_009089.1\|WP_003436121.1\|3314563_3315754_-\|amidohydrolase	gnl\|CDD\|349882	cd03886, M20_Acy1, M20 Peptidase Aminoacylase 1 family. Peptidase M20 family, Aminoacylase 1 (ACY1; hippuricase; acylase I; amido acid deacylase; IAA-amino acid hydrolase; dehydropeptidase II; N-acyl-L-amino-acid amidohydrolase; EC 3.5.1.14) subfamily. ACY1 is the most abundant of the aminoacylases, a class of zinc binding homodimeric enzymes involved in the hydrolysis of N-acetylated proteins. It is encoded by the aminoacylase 1 gene (Acy1) on chromosome 3p21 that comprises 15 exons. N-terminal acetylation of proteins is a widespread and highly conserved process that is involved in the protection and stability of proteins. Several types of aminoacylases can be distinguished on the basis of substrate specificity; substrates include indoleacetic acid (IAA) N-conjugates of amino acids, N-acetyl-L-amino acids and aminobenzoylglutamate. ACY1 breaks down cytosolic aliphatic N-acyl-alpha-amino acids (except L-aspartate), especially N-acetyl-methionine and acetyl-glutamate into L-amino acids and an acyl group. However, ACY1 can also catalyze the reverse reaction, the synthesis of acetylated amino acids. ACY1 may also play a role in xenobiotic bioactivation as well as the inter-organ processing of amino acid-conjugated xenobiotic derivatives (S-substituted-N-acetyl-L-cysteine). ACY1 appears to physically interact with Sphingosine kinase type 1 (SphK1) and may influence its physiological functions; SphK1 and its product sphingosine-1-phosphate have been shown to promote cell growth and inhibit apoptosis of tumor cells. Strong expression of the human gene and its mouse ortholog Acy1 in brain, liver, and kidney, suggest a role of the enzyme in amino acid metabolism of these organs. Defects in ACY1 are the cause of aminoacylase-1 deficiency (ACY1D), resulting in a metabolic disorder manifesting encephalopathy and psychomotor delay.	0
NC_009089.1\|WP_011861704.1\|3298320_3299415_-\|oxidoreductase	gnl\|CDD\|239201	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.	2.32239e-79
NC_009089.1\|WP_003436120.1\|3315992_3317081_-\|membrane-protein	gnl\|CDD\|226458	COG3949, COG3949, Uncharacterized membrane protein [Function unknown].	4.15619e-47
NC_009089.1\|WP_011861709.1\|3318177_3319683_-\|histidine-kinase	gnl\|CDD\|340432	cd16956, HATPase_YehU-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli YehU. This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) including Escherichia coli YehU, a HK of the two-component system (TCS) YehU-YehT which is involved in a nutrient sensing regulatory network. Proteins having this HATPase domain also contain a histidine kinase domain (His-kinase); some have a GAF sensor domain while some have a cupin domain.	2.97493e-47
NC_009089.1\|WP_011861702.1\|3292793_3293300_-\|nucleoside-recognition-protein	gnl\|CDD\|182513	PRK10519, PRK10519, hypothetical protein; Provisional.	5.40058e-58
NC_009089.1\|WP_003426667.1\|3306893_3308072_-\|cation-transporter	gnl\|CDD\|223131	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism].	8.33728e-76
NC_009089.1\|WP_011861706.1\|3302612_3303275_-\|zinc-metalloprotease-Zmp1	gnl\|CDD\|380333	cd20183, M34_PPEP, Pro-Pro endopeptidase (PPEP) and similar proteins; belongs to peptidase family M34. This subfamily includes the enzyme Pro-Pro endopeptidase (PPEP-1, EC 3.4.24.89, also known as Zmp1 (Clostridium difficile-type)), an extracellular metalloprotease showing a unique specificity for hydrolyzing a Pro-Pro bond. It belongs to peptidase family M34 and has the hallmark metalloprotease motif HEXXH, where the two His residues bind a single zinc atom, and the Glu has a catalytic role. PPEP-1 cleaves two C. difficile cell surface proteins (CD2831 and CD3246) involved in adhesion, one of which is encoded by the gene adjacent to the ppep-1 gene. There are multiple PPEP-1 cleavage sites located just above the site of attachment to the peptidoglycan layer. PPEP-1 may play a role in switching from an adhesive to a motile phenotype. Also included in this subfamily is Paenibacillus alvei PPEP-2, a secreted Pro-Pro endopeptidase. The cleavage motif of PPEP-2, PLP PVP, is distinct from that of PPEP-1 (VNP PVP). PPEP-2 cleavage sites in a cell-surface protein, with putative extracellular matrix-binding domains, and encoded by the adjacent gene, suggests a similar role of PPEP-2 in controlling bacterial adhesion.	1.19497e-105
NC_009089.1\|WP_011861710.1\|3320189_3321461_-\|serine--tRNA-ligase	gnl\|CDD\|235461	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.	0
NC_009089.1\|WP_009898004.1\|3308696_3311471_-\|calcium-translocating-P-type-ATPase,-PMCA-type	gnl\|CDD\|223550	COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and metabolism].	0
NC_009089.1\|WP_009897998.1\|3301528_3302491_+\|EamA-family-transporter	gnl\|CDD\|273359	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter. [Transport and binding proteins, Amino acids, peptides and amines].	1.03499e-14
NC_009089.1\|WP_003436139.1\|3300168_3301359_+\|pyridoxal-phosphate-dependent-aminotransferase	gnl\|CDD\|180720	PRK06836, PRK06836, pyridoxal phosphate-dependent aminotransferase.	0
NC_009089.1\|WP_003436123.1\|3311642_3312899_-\|serine-hydroxymethyltransferase	gnl\|CDD\|234571	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.	0
NC_009089.1\|WP_003436119.1\|3317365_3318064_-\|response-regulator	gnl\|CDD\|381091	cd17536, REC_YesN-like, phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators. This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	1.92172e-42
NC_009089.1\|WP_003436147.1\|3297714_3298245_-\|flavodoxin	gnl\|CDD\|378898	pfam12641, Flavodoxin_3, Flavodoxin domain. This family represents a flavodoxin domain.	1.88002e-71
NC_009089.1\|WP_011861703.1\|3293962_3295135_-\|M20-family-metallopeptidase	gnl\|CDD\|349881	cd03885, M20_CPDG2, M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme. Peptidase M20 family, Glutamate carboxypeptidase (carboxypeptidase G; carboxypeptidase G1; carboxypeptidase G2; CPDG2; CPG2; Folate hydrolase G2; Pteroylmonoglutamic acid hydrolase G2; Glucarpidase; E.C. 3.4.17.11) subfamily. CPDG2 is a periplasmic enzyme that is synthesized with a signal peptide. It is a dimeric zinc-dependent exopeptidase, with two domains, a catalytic domain, which provides the ligands for the two zinc ions in the active site, and a dimerization domain. CPDG2 cleaves the C-terminal glutamate moiety from a wide range of N-acyl groups, including peptidyl, aminoacyl, benzoyl, benzyloxycarbonyl, folyl, and pteroyl groups to release benzoic acid, phenol, and aniline mustards. It is used clinically to treat methotrexate toxicity by hydrolyzing it to inactive and non-toxic metabolites. It is also proposed for use in antibody-directed enzyme prodrug therapy; for example, glutamate can be cleaved from glutamated benzoyl nitrogen mustards, producing nitrogen mustards with effective cytotoxicity against tumor cells.	5.10782e-153
NC_009089.1\|WP_003431751.1\|3293301_3293949_-\|membrane-protein	gnl\|CDD\|225851	COG3314, COG3314, Uncharacterized protein conserved in bacteria [Function unknown].	6.22882e-07
NC_009089.1\|WP_009891132.1\|3312970_3314473_-\|AbgT-family-transporter	gnl\|CDD\|225525	COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism].	0

>NC_009089.1|WP_011861706.1|3302612_3303275_-|zinc-metalloprotease-Zmp1
MRPSKKLLIAIISIFLISSVPVSAHADSTTIQQNKDTLSQIVVFPTGNYDKNEANAMVNRLANIDGKYLNALKQNNLKIKLLSGKLTDEKEYAYLKGVVPKGWEGTGKTWDDVPGLGGSTVALRIGFSNKGKGHDAINLELHETAHAIDHIVLNDISKSAQFKQIFAKEGRSLGNVNYLGVYPEEFFAESFAYYYLNQDTNSKLKSACPQTYSFLQNLAK
>NC_009089.1|WP_009897998.1|3301528_3302491_+|EamA-family-transporter
MKKGYVYIILTTLFFSSMEISLKTVTNDFNPLQITLSRFFVGGLVLLPFAVKRLRALSLSITKSDLKYFAFLGFMCVVVSMSLYQLAVLNTKASVVAVLFSCNPVFVMLLAYLILKEKIYRHNVISLILEVLGIIVIINPLHTKLTLSGIFLTLSSAIIFSMYTVFGKRKTLKFGGIVVTCFSFIFGSLEMLILVLLTKINFIADILNKNKLHVFANIPIFSGYTLHNMPIMIYVFVFVTGVGYALYFMAMEATSTSLTSLVFFFKPVISPILALLILKEIIPINMVVGILLIVIGSIISIIPTIITQMHNKHVEALYKE
>NC_009089.1|WP_003436139.1|3300168_3301359_+|pyridoxal-phosphate-dependent-aminotransferase
MISNKMQTLVANSSVIRAMFEEGKKLSDIYGEENVFDFSIGNPSVEPPETIKAVINDILNEESPNLVHGYMNNSGYEDVRDAIAEHINKKDGLNLTRENLIMTCGAAGGLNIILKTLLNPGDEVIAFAPYFGEYKNYTENYDGKLIEVPTNIETFEPDLDALKNAITPKTRALIINTPNNPTGVIYSEELLKNLGELLDSKQKEFNTSIYLISDEPYREIIYDGAKVPCVLKYYRNSFIGYSYSKSLSLPGERIGYIVANGQMDDFDDVMSSLNVANRILGFVNAPSLFQRVIARSLDAEVDVNIYKKNFDLLYNSLIDMGYSCVKPNGTFYLFPKAPIEDDKKFCNDAKQFNLLLVPGSSFGCPGHFRVSYCVSYDKVKSSLPAFEKLAKLYNLK
>NC_009089.1|WP_003436142.1|3299416_3299863_-|winged-helix-turn-helix-transcriptional-regulator
MDFKNLQYESLSYIICNLQKNFKLYCEKCLKPYKLTNGLYFYLIYINKNRNCSLNDVSTEFEVDKAHTTRTISRLEQDGYIEKIQNPNDSRAFQLRVTDKGEEVLGDIKNIFSKWDNHIKKEFSDTEYKELVKNLHVVKDIKTAVEEE
>NC_009089.1|WP_011861704.1|3298320_3299415_-|oxidoreductase
MYCNLLKPIKIGNLELKNRVSFAPTSMGLKLEEKIKKFSDIAKSGVALITLGDVSIRPSFHKVAISLSDEDGVMKYKKIVDEIHNSGAKVSAQLFCSDYDVNLIKDTMKMGITSHDEIKKIMNDGVKDYITNMTKGEIKNIINLFKVTALNAKKAGFDMIQIHGDRLVGSFSSSIFNNRNDEYGGTCDNRSRFASEIISSIRDEVKDIPIDYKFAIRQENPHYGNAGVLLSEVEYFVKKFESLGVNSFHVTLANHSKLEDTIPTNNHPYFKDEGCFLYLADEVKKHTNLPVCGVGKLSSPDFIESIISNNRVDMVSMSRQLLADSNWLQKVKDGRVDEIKKCCYCNKKCADALQTRSQFGCILD
>NC_009089.1|WP_003436147.1|3297714_3298245_-|flavodoxin
MKSLVLYSSLTGNTKKIAYTIYDEIQEEKDIKDVNELVDYGIDYENYDIVFLGYWVDKGICDKNSKQVLENIHNKKIALFGTMGASKKGSYGASIIEKIESIIPKDNEILGSFICQGKIAEGLKAKYKEMLKLSPDNEHIRQQLNNHEESQSHPDEQEIYEASMFAKNMMIKASIV
>NC_009089.1|WP_003436150.1|3295402_3296779_+|hypothetical-protein
MKYKIGFLTTSYFMSDKFKQALKELNDTCEITFIELKGENPFNNLPNIYYEQVDNFDGFVCSGIVPYSELIINIKDIKVPLNFLKLDERDFYKYLFKLLNSQKDIDFTKSFMDFLREDNNYYDIYSLIDSNKCPYTIKDFNIPQPVYDFKKLNDKLLEIHLDLLRDNKINLSFTRNYIISCELNKLGYDCIYMVPSTESILNTFKSLVNEITLQNLDKNKSATCIVTVNSSEYINEDLIFKNDEIQNQIYNTILNSLSRHGFYGVQVKKNDMKIEIHTTKEMLNNMTNNYTDFFISEDLKEIKYSLNIGWGIGNTNIHAEQNARQANGKSASLNGNCTFIVNDTNDTIGPLYSNKNSNNIEDSSIANKVASFIPLSNTNVSKIMCMINDRNSNNVSAEILADYMNITLRSANRILSILYKAGIATIVNTKLDNQRGRPKKIYKVDFLSFLNKMQKLNS
>NC_009089.1|WP_011861703.1|3293962_3295135_-|M20-family-metallopeptidase
MNTYLNEISKFVDENREEIVSLWKEIVNMESYTHCKESVNKLAERLKLEFEKEGLDCELVDVGDNGSTLIGTLGSNIDKKPIIFSGHMDTVFETGTFGENPFKIIEGKAYGPGVLDMKGGIIISLYVIKALNKIGYKERPIKIVFSGDEEIGHKDSTGADVILREAKGGLCAFNMETGLVDNSLCVGRKGRIGCNIHVKGVETHAGNDFEGGRNAIEEMANKILRIQKLTNLDVGTTVSVSVIKGGRVENSIPEDCSIKVDLRFEKVEEMENVKEQVREICKETYIEGTSTEVNFISEMMPFETTEDVMRFHTFVNEVSKENGFGELNAKRLGGSSDASYLTIANVPTICSFGVRGEWNHTSREYAVVDSMFERVKLISTVILNLDKFEV
>NC_009089.1|WP_003431751.1|3293301_3293949_-|membrane-protein
MDVTAGDNKVTWKGYLSLFVLIVLFSGVFKDSQGFLKALDFANLTGSFGTIADGVDFMGKGGTGAKDGFLFALTLIPTVCFAVGLIDVVESMGGMKAASKIFNPLLRPLLGIPGIAGIAFVSSFTSSDVASIMTKELFESGEITDDERTIFVAYQYAGSAVILNTINTQAPLLPIALLALGPIILIEIFCKILGANLVRLIIGVRNKKNKAKEAV
>NC_009089.1|WP_011861702.1|3292793_3293300_-|nucleoside-recognition-protein
MSQQNTGNAINSKPKKTAVEIFMGGAKKGFYIGVEQILPAMIMGYVIVQFLQLTGLVDILGNIFGPVMGIFGLPGESVVVLIAAFFAKAAGAATAANLFAQGLITAPQATILIMPCMLMGTLVGHYARIVLVANASTKYRMLLLAVPIFDAIVGMLIVRVLLTVMGLM
>NC_009089.1|WP_003426667.1|3306893_3308072_-|cation-transporter
MFSKILVKTFIRDSENVQNTDVRNKYGYVAGVVGILSNLLLFVIKVFIGMLTSSIAIMADAFNNLSDMASSAITMIGFKLASKPADKEHPFGHGRIEYLSALIVAFMVMLVGLQFVKSSIERIVNPIPVKFEVIPLILLIASIMIKIWLSRFNKFMGNKIDSSALKAVSLDALGDVFTSSCVVISFIVARFTNFPIDGYVGIVVSLVILYAGFSLVKDTINPLLGEAPDEEMVNSIIELLLSYKYIIGTHDLIIHNYGVGRCIASIHAEIPSNIDIMEIHEIIDTAEREISEKLDIYLVIHMDPICLEDKEVMSAKKELEEILKKNSLVKSMHDFRIVGKGSKKNLIFDIVVNPSEFSKNMSEDDLKEDITKLVKEINPEYNCVIVVDKDFI
>NC_009089.1|WP_009898004.1|3308696_3311471_-|calcium-translocating-P-type-ATPase,-PMCA-type
MRYYNKPTKEVLKYLKTNPEIGLDDNEVEERKLRYGLNEFTIKEGRTFWDELGESLTEPMILILIGAAVISSFVGELHDALGILGAIFIGISIGIITEGKSKKAAHALSKLTENIEVKVLRNGKIIKISKNDLVPGDIVYIETGDMIPADGRLIQSINLKLREDMLTGESDDVAKNADAVLDMEVVYSKTEIIEQDAIPAKQVNMVFGGTLVAYGRGIMVVTHTGDKTEMGKIAQNLSNEDQQTPLQIKLGKLGAKIAGISGIIATLLCMFMIIQMQRKGMLILDTSSVLSFLQSLEPAKNAYMVCIALIVATVPEGLPTMINITLAITMQKMAKINALVTKKEACETIGSVSVICSDKTGTLTQNKMMVEVAYVDGKYISGGEYQSNSYFEQNCIVNSTADIEKEDNSFKYIGSATECALLLYHNDKNYNEMRKQTYLISQIPFSSEEKKMSTLIRQEDSDILLSKGAPEVLLKKCSYVQQGKNIVPITPKVEKSILDEIKKLQIKSMRTLGFAYKKMSNSKTEVAMTSEGELNLIGNSRSYMKEDNLVFSGFVGIVDPLREGVKDSIDKAFNAGVDVKMLTGDNINTATAIGNELGLLNDGKKAVEATYIDVLTDKELREEIKGISIVARSKPDTKMRIVSALQKSGEVVAVTGDGINDAPALSQADVGIAMGISGTEVSKNAADIILTDDSFSTIVEGIKWGRGIYENFQRFIQFQLTVNIVAFIIAIISQLTGKDMPFTTIQLLWVNIIMDGPPALALGLEPVRDYVLKRKPINRHSGIIARSMFVNIIINAILIITIVFTQSAFNILGATSEEQGTVIFSLFAFSALFNALNCREFGLNSTIPNFFKNKLALQIIVVTGIIQIIFTQVFQSFFNSVSLDFDMWIKIILFASTILLSNEFVKLILRTMKNSRTMNFNSKN
>NC_009089.1|WP_003436123.1|3311642_3312899_-|serine-hydroxymethyltransferase
MLKTTKISDPELYKIVADELVRQEHNIEMIASESTAPTEVLELSGCVFTNKTEEGYPGARFQAGSEEADKLETLAIKRAKEVFGAEHVNVQPYSGSTANYCVYSSILKPNDTVLSMRLDQGGHLTHGSAVNFLHDIYKYEFYGVDPNTGRIDYDALEAKAKECRPKLIIAGASSYPRLIDYERISKVAKEVGAYFMVDMAHVAGLVAAKVIPSPVPYADFVSSSTTKTFCGPRSGIVLCKAEHAKKLDKGVFPGTLGSIHLNTVAAKAFSLLYLSTDKFKKIMEQVVVNAQTLASELISHGFSIVSGGTDNHIVMVDLRSKNLTGKQFEKALEYVGITVNKNVIPDDPQSPFVTSGVRIGLTSISQRGLKEKEVIQIAGIMNKVAENIDNKEVLDECKAEAQELISKFPLYPEGYFED
>NC_009089.1|WP_009891132.1|3312970_3314473_-|AbgT-family-transporter
MRALNVVERAGNKLPDPVTIFLLLCIIVVILSAVISNLGVEEIHPSTKEVVKVVNLLEKEQIQSYLGSIVTNFQSFAPLGLVLVTMLGAGVAEKSGFMEVLMKKGISKVPQKLVTVAIVFAGMLSHTAADVGFIILPPLAALVFLGIGRHPLVGMFAAFAGVAGGFAANVMLSTTDVLLAGFTIPAAQMMDPSYQGNPAMNLYFAFISAIVLTFAGAFVTEKFIAPRFTKYNDSTNDKDIQELSELENKGIKYALLSLLVVVVVIVALCIGDNAFMKDPETGSILSSNAPLMKGIVPIITIIFLTPGLVYGKVSKKIKSDKDLVSMMGSSMSDMGGYIVLAFIASQFINLFNLSNLGTILSITGAKLLAESGIPSYGLIIGFILLSGFINLFVGSASAKWAILAPIFVPMFMLLDFNPALTQIAYRIGDASTNPISPLFPYFPVILAFARRYDKDIGIGTVISNMIPYSVVFTLIEIIILLLFMGIGIPLGPGGGISYVL
>NC_009089.1|WP_003436121.1|3314563_3315754_-|amidohydrolase
MHELILISEKYKEDILDFFTDIHMHPELSFKEFRTTKAIKDLLVSLDIEILDLGMETGVVGLLKGKYDGPTVALRGDIDALPIYEEVDIKYKSRYDGIMHACGHDIHTSCLVGCAYVLSHIRDSLHGNVKFIFQPAEEVNKGAKMLVERGVMENPKVDAIFGLHNHPDIPCGKIGVKLGGLMAAVDTIKIEVNGFGGHGGIPNRTIDPIVASSAIIMGIQTIVSRNISPLESAVISIGTINGGTANNVISEKVDMTGTCRSFSNEVRKKISENLENIVCEIARGYQATAKLDYLFDLPAVINSKEMYAIACKSVCDLYSEDAIVDPIPSTGGEDFSIFMEKAPGFFYWLGVGNKEQDCIYQWHNPKFKADKNSILVGTNVLCQSVINYMDKLKNKI
>NC_009089.1|WP_003436120.1|3315992_3317081_-|membrane-protein
MSDKVNMKNIICIAGAYLATAIGSGFATGQEILQFFASQGYMGLIGALISMVLFSFLGAEVITRGRELKLKEPTRIYTFYCGKILGKFYEWFSPIFLFGILIVMISGAGSTLTEYYGINPYLGRVLMAVATLITVSMGLEKLVSILGRIGPVIAVFTIAVGLISLFKHFDGLSMVGEAMKNIEVTKASESPIVSGVIYNTLNIIVMIVFLTGMGASIESKKDAFWGGLLGGIVFMTAGIVMYLAMISDIGNLYMKEIPSLYLADNISPIVGVCFSVALILGIYTTAVPLLWSVTNRIVEDEHPKFKLVTTVIAILACIGGFLPFGKLVNILYPYTGYMGLLILVCMVYKAITCRKKSTQSQE
>NC_009089.1|WP_003436119.1|3317365_3318064_-|response-regulator
MRRALIIDDEEAVLKIITHFIEMKDMPIKIVGKATSGDEAVDKIIGLEPDIVFIDIQMPIYNGLEVIEKTSHLSKKINFVVITAFNYFEYAQKALRLNVKDILLKPLDMKEFTKSVEKIIGYQYTNNDLLNEILEYINLNYSNDLKLNDCARLFLTNPSNISRIFKSNLNTTFISYLNHIRIEKSIELLENTTKSINEIAEIVGYNSLNNFYKNFKIEKGMTPKVYKLNTKN
>NC_009089.1|WP_011861709.1|3318177_3319683_-|histidine-kinase
MKIQNTEWGYIEWKHTYDENNPKQAMNIYIAVTMPGKKHFNHVHYGQEQMIYILEGEGLYIINGVWKPFYQGMIFYIESGSTHETINTGDREIKELIVSNNVDDVGESEIIDINPNNYLKKTLINYSESTLNLYAAVESIRGQFIDPFKIPLIIYDDSWNIVLKNPYFPLFCFEKCNPMKFPQNCDCMNQKSSNQFVCEYGITIYNIPILYKSNSIGVIRGGYVLLSDLNLDTEHNNLYDIPEGAARSIKRLLKQISKNIINFCSFNDIRKDLQEKEKTIARTYHYGEQLEMNLKVAQDMVTNLRINHHFLFNTLNSMASIALDDGSYDLYSAIIDLSRMFRYTMRSDLRFVELESEILYIKNYLNLQKLRYGDALKVKYLIPEKLYNLSVPFNFIQPIVENAFTHGFRDIDTEKRIEIIARLDSQYAIIEIHNNGTILDGNNIDKIKAGIRSNNGHGLSLIYTKFTSAYGNNFDMDIKSSDNEGTYIMIKIPIENYKEYV
>NC_009089.1|WP_011861710.1|3320189_3321461_-|serine--tRNA-ligase
MLDIKRIRENLDCIKKAMERRGEKDFNLDEVVKLDDERRKILQEVEVMKNELNTASKNIPNLIKEGKDVENEKIKLKELSDKIKVIDQNLKEVEDKMEYLLMRIPNVPHPEVPQGETDEDNVEVRTWGKTTTFDFESKAHWEIGTELGILDFETASKITGSRFTLYKGLGARLERALLNFYLDTNTKVNGYTEVIPPFMANRNSFLGTGQLPKFEEDMFKIEGLDYFMIPTSEVPLTNIHANEILKFEQLPINYTAYTPCFRSEAGSAGRDTRGLVRQHQFNKVEMVKIVAPEESYNELEKLTNNAETMLQLLNLPYRVVKICTGDLGFTASFKYDVEVWMPSYNRYVEISSCSNCEDFQARRAGIRFKRDKDSKTEYVHTLNGSGLAIGRSVAVILENYQQEDGSVVVPEVLRAYMGVSVIK
>NC_009089.1|WP_011861711.1|3322276_3323881_-|amidohydrolase
MKAKIYYNGNIITMEDSICGDAILIKDKIIKKIGTKEEVFALKNKDTEIIDLQGKTLMPSFIDSHSHLIAFATTLKLVPLEDATSFKDIVKKIQDFKESNNIKKGDWIIGFSYDNNFLEENKHPDKSVLDSASSENPILISHASGHMGVANTLGLKQLGVTNETRDPEGGHIGRVEGSEEPNGYLEENAFFNVASKIKQPSSNEIFNSIEKAQNIYLSYGITTAQEGLMEENQFNILKAMANQNKLKMDVVGYVNLKKSKSVVDNNREFIKKYINRFKIGGYKIFLDGSPQGKTAWLSRPYENSDDGYCGYPIYKDEEVEKFIDISLKEKMQLLTHCNGDAAADQLIDAFEKVLNLKEQSSENNIRPVMIHAQTVRADQIDDMKVINMIPSYFVAHTYYWGDIHIKNLGEDRAFKISPLKTTIEKGLIYTLHQDTPVIAPNMLETVWCAVNRITKKGIQIGENEKISPLDALKGVTINAAYQYFEEDKKGSIKEGKLANLIILDENPLTIDPMKIKDIKVLQTIREGEVLYSLK

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Crispr_ID: NC_009089_19

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_19

3396821-3397048

Orphan

I-A

Consensus_repeat	Method
ATTTACATTCCATATAGTTAATCTAAAAC	CRISPRCasFinder
GTTTTATATTAACTATGTGGTATGTAAA	PILER-CR

3 spacers

The CRISPR arrays of NC_009089_19

>merge|NC_009089|19|3396821-3397048|CRISPRCasFinder,PILER-CR
ATTTTAAGTCCACATAGTTAATATAAAACCCTTTATAGATAATTTTATAGACTCTTTGTATGTACTATTTACATACCACATAGTTAATATAAAATGAAAAGAGTTTGTAGGGAAAATATTTAATGATGCAACCTTTACATACCACTTAGTTAATATAAAACAAGAACTAGCTACAAGCTTTATACAGCGTTCTCAAACCTTTACATACCACTTAGTTAATATAACTCT

>NC_009089|19|17|3396821-3397048|CRISPRCasFinder
ATTTTAAGTCCACATAGTTAATATAAAAC	CCTTTATAGATAATTTTATAGACTCTTTGTATGTACT
ATTTACATACCACATAGTTAATATAAAAT	GAAAAGAGTTTGTAGGGAAAATATTTAATGATGCAAC
CTTTACATACCACTTAGTTAATATAAAAC	AAGAACTAGCTACAAGCTTTATACAGCGTTCTCAAAC
CTTTACATACCACTTAGTTAATATAACTCT

>NC_009089|19|11|3396830-3396981|PILER-CR
CCACATAGTTAATATAAAACCCTTTATA	GATAATTTTATAGACTCTTTGTATGTACTATTTACATA
CCACATAGTTAATATAAAATGAAAAGAG	TTTGTAGGGAAAATATTTAATGATGCAACCTTTACATA
CCACTTAGTTAATATAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861036.1\|3393095_3395447_-\|tape-measure-protein	unknown	unknown	gnl\|CDD\|131723
NC_009089.1\|WP_003429853.1\|3398856_3399297_-\|phage-portal-protein	unknown	unknown	gnl\|CDD\|378084
NC_009089.1\|WP_011861040.1\|3388679_3389729_-\|baseplate-J/gp47-family-protein	unknown	unknown	gnl\|CDD\|377414
NC_009089.1\|WP_009888836.1\|3402532_3402934_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861042.1\|3387254_3388058_-\|phage-tail-protein	unknown	unknown	gnl\|CDD\|372197
NC_009089.1\|WP_011861035.1\|3395517_3396087_-\|zinc-ribbon-domain-containing-protein	unknown	unknown	gnl\|CDD\|236014
NC_009089.1\|WP_011861039.1\|3389729_3390149_-\|DUF2634-domain-containing-protein	unknown	unknown	gnl\|CDD\|378510
NC_009089.1\|WP_003429844.1\|3402191_3402539_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003429855.1\|3398354_3398516_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861032.1\|3399855_3401166_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377435
NC_009089.1\|WP_003429851.1\|3399368_3399839_-\|phage-tail-tube-protein	unknown	unknown	gnl\|CDD\|378178
NC_009089.1\|WP_011861037.1\|3392390_3393080_-\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|236880
NC_009089.1\|WP_011861030.1\|3401766_3402192_-\|HK97-gp10-family-phage-protein	unknown	unknown	gnl\|CDD\|377415
NC_009089.1\|WP_011861034.1\|3396130_3396691_-\|lipoprotein	unknown	unknown	unknown
NC_009089.1\|WP_009896624.1\|3402943_3403177_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274765
NC_009089.1\|WP_011861031.1\|3401167_3401344_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861038.1\|3390427_3392398_-\|cell-wall-hydrolase	unknown	unknown	gnl\|CDD\|366353
NC_009089.1\|WP_011861041.1\|3388069_3388687_-\|YmfQ-family-protein	unknown	unknown	gnl\|CDD\|378379
NC_009089.1\|WP_009901352.1\|3390153_3390414_-\|DUF2577-domain-containing-protein	unknown	unknown	gnl\|CDD\|378501
NC_009089.1\|WP_009901504.1\|3401336_3401774_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861036.1\|3393095_3395447_-\|tape-measure-protein	gnl\|CDD\|131723	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain. Proteins containing this domain are strictly bacterial, including bacteriophage and prophage regions of bacterial genomes. Most members are 800 to 1800 amino acids long, making them among the longest predicted proteins of their respective phage genomes, where they are encoded in tail protein regions. This roughly 80-residue domain described here usually begins between residue 100 and 250. Many members are known or predicted to act as phage tail tape measure proteins, a minor tail component that regulates tail length.	1.61877e-16
NC_009089.1\|WP_003429853.1\|3398856_3399297_-\|phage-portal-protein	gnl\|CDD\|378084	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC. This is a family of phage tail assembly chaperone proteins, TACs, from Gram-positive bacteriophages, in particular PBSX from Firmicutes.	8.20802e-57
NC_009089.1\|WP_011861040.1\|3388679_3389729_-\|baseplate-J/gp47-family-protein	gnl\|CDD\|377414	pfam04865, Baseplate_J, Baseplate J-like protein. The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologs, which are thought to have been horizontally transferred.	6.54674e-50
NC_009089.1\|WP_011861042.1\|3387254_3388058_-\|phage-tail-protein	gnl\|CDD\|372197	pfam12571, DUF3751, Phage tail-collar fibre protein. This domain family is found in bacteria and viruses, and is approximately 160 amino acids in length. There are two completely conserved residues (K and W) that may be functionally important. The members are annotated as being putative phage tail or tail-collar proteins.	1.66977e-58
NC_009089.1\|WP_011861035.1\|3395517_3396087_-\|zinc-ribbon-domain-containing-protein	gnl\|CDD\|236014	PRK07418, PRK07418, acetolactate synthase large subunit.	0.000331623
NC_009089.1\|WP_011861039.1\|3389729_3390149_-\|DUF2634-domain-containing-protein	gnl\|CDD\|378510	pfam10934, DUF2634, Protein of unknown function (DUF2634). Some members in this family of proteins are annotated as phage related, xkdS however currently there is no known function.	1.81684e-36
NC_009089.1\|WP_009896624.1\|3402943_3403177_-\|hypothetical-protein	gnl\|CDD\|274765	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition. [Mobile and extrachromosomal element functions, Plasmid functions].	0.000139844
NC_009089.1\|WP_003429851.1\|3399368_3399839_-\|phage-tail-tube-protein	gnl\|CDD\|378178	pfam09393, DUF2001, Phage tail tube protein. This is a family of phage tail tube proteins including protein XkdM from phage-like element PBSX protein whose structure adopts a beta barrel flanked with alpha helical regions.	2.40208e-57
NC_009089.1\|WP_011861037.1\|3392390_3393080_-\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|236880	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional.	3.86484e-11
NC_009089.1\|WP_011861030.1\|3401766_3402192_-\|HK97-gp10-family-phage-protein	gnl\|CDD\|377415	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component. This family of proteins is found in the caudovirales. It may be a tail component.	2.86254e-17
NC_009089.1\|WP_011861032.1\|3399855_3401166_-\|hypothetical-protein	gnl\|CDD\|377435	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain. This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	3.90974e-37
NC_009089.1\|WP_011861038.1\|3390427_3392398_-\|cell-wall-hydrolase	gnl\|CDD\|366353	pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.	3.23294e-31
NC_009089.1\|WP_011861041.1\|3388069_3388687_-\|YmfQ-family-protein	gnl\|CDD\|378379	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313). Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins.	7.80829e-43
NC_009089.1\|WP_009901352.1\|3390153_3390414_-\|DUF2577-domain-containing-protein	gnl\|CDD\|378501	pfam10844, DUF2577, Protein of unknown function (DUF2577). This family of proteins has no known function.	1.7145e-19

>NC_009089.1|WP_011861034.1|3396130_3396691_-|lipoprotein
MKKKVCFLFSILIVICLAIVGCSNSESPEESSKNNEPKKEEKKDKEVVIGEKIISDKMEITINNIEFSYDVLPKVKESLYTHYPAESGKVYIDIAADIKNTQKQELNCSDLLTIEANYNDGYKYSSQTIVEDETTGFTYDNISSIDPLETKGVRFIIDCPDEVKTSDKPVILSFTFDGNKYVYKMK
>NC_009089.1|WP_011861035.1|3395517_3396087_-|zinc-ribbon-domain-containing-protein
MDDIVEYIFCSECGAKCLKGSKFCSECGTEIADIKMLNESIIKEKEYDLKGIDLQHVMQETSFIKASSVRRLKELTGIELDDCRKILEEPYQKYYNENADMLEEKRKKEDDISKIRKAKEEKKEKEKIACCPACGSTSLTTHKKGFGIGKAITGATIAGGIGLVAGNIGAKKVRVTCLNCGKQFWAGKK
>NC_009089.1|WP_011861036.1|3393095_3395447_-|tape-measure-protein
MATIQTSIRIFDGMTPAFRNMTTSINTTINSLERLQGRLNNPLNTGGIQTSQQSLNNIESILTRIEQSIGKADEQQRKFNDDINKGASNTDRLLGSVKKVVGTYMGLKTIGGLANLSDQMTSTNARLNMINDGQLSDGGLNKMIFQSAERSRASYLDTAQIVSRIGMNAGSAFSSTREIVSFAEQLNKKFVIAGASTEEMNSALLQLTQGLGSGVLRGEELNAVFESAPNIIKSIADYLDVDIGKIRGMASEGMLTADIVKNSLLAASAETNAQFEKMPLTIGQIFTSIKNNAVMIFGAIQKKIEDTVSSGGFRTFIVNVTDSLYVLGAVGYSVFNGFIDLLSSPTFQGFANMMIVGISLITQGFGWLLTVLGSVINFISQGWSIIQPILITSIVLWGLYKTAVIAGALVTAIQVVWIALQTFWTNLLNGSLLTNIMMNIAAKISTDALSGSMLLLITTIVMVVAAVALVIAAIFVAVAIFNHFAGTSISATGVVVGAFYFLGTCIYDVFAGAWNIVMAFAEFFVNSFNIVIYNVQLLFYKFQNFVINAMGDVGGSFDNCATALANAFVSAANIAIKGINGVIKTLNLIPGVNIKTFGSLDKIDSFVKQYKDYQKTLKEPVKPAEWKAPTMKLKNPVDSFKKGYEVGQNLENKIKDAFDISKIAEKAKKDLGLDDLWDDKYGLGDRFGSAGLNSPLNNAAKGAKDTAGNTAKMAKTMDKSQEDLKYLRDIAEQETINRFTGVNIKIDMNNTNNISKDTDVDGIVNVLTEKLNDAMVVSAEGIV
>NC_009089.1|WP_011861037.1|3392390_3393080_-|LysM-peptidoglycan-binding-domain-containing-protein
MAYDFYLDGVQLPIPPPKLEIKVTNKNKTVDLINTGEVNILKKEGLSEISFEAEFTHNKLPFYRGAFRDVQFFLSKLELLKTDCKPFQFIVSREMGGKVLFNTNIKVSLEEYAISEDADNGSDTKVAIKLKQYRDYSTKKLVLAPPKNETGRPNVKIEPKRVDSVNATNTKTYTVKAGDSLWSICQKQLGNGSLYKKVYELNKSMMDKANKGKNLSKYTIYKGQVLKLG
>NC_009089.1|WP_011861038.1|3390427_3392398_-|cell-wall-hydrolase
MVDELVLANDRDVRLVIAHWEDFYEPAVIDGITWEIERRGTPSKLEFTIVMDDILEFCEGNSVRLYYKGIGIFYGYIFQKKRDKENHIKIVAYDQLRYFKNKDTYVYSNKTASELVKMLAKDFNLKYNVIEDTKYKISRVEENKTLFDMILTALDDTLREKKEMYVLYDDFGRITLKNVASMKLDTVMNNDVIEDFDYNSSIDSDTYTKIKLVRDNEESGKRDVYIAQDSAHMRSWGILQMFDTVDKNMSEAEIKQKCDILLKLYNKKTKSLSLKNALGDIRVRAGCLVPVFLDLGDIDLQNYMLVEKVKHTFENNSHFMDLTLVDGDEFASYSSSSYSSGNSNNKDEKKNGPAQSTTSKEDNDMINKLNKVFKNKLSNTGNIFVKYSNAYKVNAALMAAISIHETGNGSSSLCKNKNNFFGMKGMSFGSVDEGIKRGISNLSRNYIHTGRKTLESIRDKYAPLYDSPLNKDWVPGVGKFYKQITGNAYSSNSAGTGVGSNEEAEKNLKDTTYQVQNNNSNTLTNNNSKVSKVIQEAKNQLGKPYAWGGNGPKSFDCSGLMVWAFKRGAGINLKRVSADQSKDSRGKLLCNINDVKAGDLVFFAYNKGKGNVHHVGLYIGNDQYIHAPQTGDVVKISSLSGRQKKKHDFARARRFF
>NC_009089.1|WP_009901352.1|3390153_3390414_-|DUF2577-domain-containing-protein
MSQELLQIIKKAAMDAVETSNPMQIAFGTIESVNPLIVKIEQKASFEEFFLIQTETFKRYTDKKIGDKLVLIRMQGGQQYLILDRM
>NC_009089.1|WP_011861039.1|3389729_3390149_-|DUF2634-domain-containing-protein
MLPSDNLDYDIEDVSIINFDVRQEPSKTFKLNIEKSKIDGICDDVEALKQTIFLILNTERYEHLIYSWNYGVELNDLIGEPISFVIPELERRIKEALIQDDRVENVDNFEFQNVKGKVHCKFTVHSKYGNIKAEKVVSV
>NC_009089.1|WP_011861040.1|3388679_3389729_-|baseplate-J/gp47-family-protein
MFELMTFENIIKRMLDSVPDTFDKREGSIIYNALAPVAIELTETYIAMDELLDQTFVDTASYYYLEKRCKERGITPLSATNTIAKGVFNIDIPLDSRFNLGEYNYIAIERISEKTYKMKCETAGPIFELGKLIPIEYIDGLETAELTEILINGEDEESEDSLRQRYYDSLNSQSFGGNMQNYKDEVNKIQDVGGVKVYPVWDGGGTVKLVIINSNFKVPSEDLVNLVQEEIDPIGHQGQGLGLAPIGHKVTVTGVVSTTINISAEITYKNGYTWENIKSIAEEAIDDYLNELNMSWEDEENLIVRISQIETRLLSIDGVLDITNTMINDVKSNLTIDSNSIVVRGEVVG
>NC_009089.1|WP_011861041.1|3388069_3388687_-|YmfQ-family-protein
MDKEINLINYLPQILQDKEEYIKVFNVENKEIKTLHEKLNDLSSDQFLEDLTPSGIKRWEKIMSITPKSNESLEDRRFRIFSKYISKLPYSERFLRNWLDSIVGEGNYELTINNATYNIHLESDARNQDWFEEVHSFVSNIKPCNMTLDYTRVLISKDNYMNFGITTLMGQEITIYPWSPPDIETYGEIDVLTGNGVGYQEITIF
>NC_009089.1|WP_011861042.1|3387254_3388058_-|phage-tail-protein
MAIDKSYYTIITDVGKAKIANASVTGNKVGFVKIQLGDGGGSEYTPTESQTALKNVVWEGNIGNTTTDETAPNCIILESLIPSSVGGFMIREIGYLDDENNLIAISKYKECYKPSIEQGAVVDMKVKTVLIVSNVNNIELKIDPTIIFATLKDIQELETKIGTINTKIDTTKTELTSNIETAKTELSNKIGDTTQLNTTDKTNIVSALNEVKTSVDSIETTAEKTSYNNATSKLTATTVQGAIDEVVAKIENFNEVNISIQNDMLPI
>NC_009089.1|WP_003429855.1|3398354_3398516_-|hypothetical-protein
MNNFLLNVIAGVIASLIFCLICKVFLKVKSHSTRGKSKSGWEFDFKIKFHKFK
>NC_009089.1|WP_003429853.1|3398856_3399297_-|phage-portal-protein
MSNLSAFLSQNAIKVDNVKYVASNRFLDKEGKPVEWELKVLSSEEDEALRRKCTKRVKVIGNNGKHTGQYTSEIDYNSYVAELCVASTVFPDLKDAELQNSYGVMGEAQLLKTMLTAGEYVNYTVKVNEVNGFDTSFEDKVEEAKN
>NC_009089.1|WP_003429851.1|3399368_3399839_-|phage-tail-tube-protein
MAQTINAKDTVSAKKAECFITIEGKRYNFMQAIDLEAKMEKNKSEVPILGRTTKGNKTTGSTNTGSATFHYNTSIFRELLYRYKETGEDIYFDIQVTNEDPTSAVGRQTVVLKDCNMDSGIITKFDADGEYLDEDMDFTFEDWELVEKFNLLAGME
>NC_009089.1|WP_011861032.1|3399855_3401166_-|hypothetical-protein
MALGGGTFVTQNKILPGSYINFISAKRATSSLSDRGIVAIPLELDWGIDEDVFQVTSDDFEKYSVKYFGYDYTHEKLKGLRDLFKNIRLGYFYKLNKGVKASCTIATAKYSGIRGNDLKVTVTTNIDDNAKFDVVTLLDNKKVDTQIAKVITDLQDNDYITWKKDATLEASAGLVFTGGTNGEAVTGAEYQAFLDKIESYSFNALGCLATTTEIKSLFVEFTKRMRDKVGAKFQTVLYKKSDADYEGVVSVENKIKEIGLVESSLIYWAAGAIAGCDINKSNTNKKYDGEFDVDVNYTQIQLEEALKTGKFIFHKVGDEVHVLEDINTFVSFTDDKNDDFSSNQSVRVLDQIANDIATLFNEKYLGKVPNDKAGRISFWNDVVKHHKELENIRAIEDFKTDDVSVELGNDKKTVIVSDAVKVINAMSKLYMTVSVN
>NC_009089.1|WP_011861031.1|3401167_3401344_-|hypothetical-protein
MNKTLSKEDNYKFTKEQIVNSKKYVNRKDLLNAILKENDLYSFSEVEEIINSFMKGVS
>NC_009089.1|WP_009901504.1|3401336_3401774_-|hypothetical-protein
MLNNIIDGISVKLDKSFGEKYTIYSEDVEQGINEPCFFIVPLNPSKTPYPSGRELKKNSFDVHYFPHSEDKNFEINEIAEMLLEELEYIEIDGDLVRGTNMNFEIIDNVLHFFVDYNYFTIKSNDTDKMDTVELFGGLKRGDNFE
>NC_009089.1|WP_011861030.1|3401766_3402192_-|HK97-gp10-family-phage-protein
MARWGSVDFREFKRVCKKMEELTKIDLDKFCKDAARELAARLLGKVIRRTPVDTGFLRQGWNGVAYARSLPVYKQGNNYIIEVVNPTEYASYVEYGHRTKGGKGWVKGQHFLTISEMELQGQVDKIIEKKLLILLKGVFDA
>NC_009089.1|WP_003429844.1|3402191_3402539_-|hypothetical-protein
MVSKTRKAIEMLYRDKCTIVEYQPIKDPVTKRTNNKEVIVLENQPCKLSYKNIVSATEGKVAKLEQTIKLFISPDIEIKAGSKLIINDKEYVRSGESAIYPNHQEIILELFKDKA
>NC_009089.1|WP_009888836.1|3402532_3402934_-|hypothetical-protein
MENNIIDEIEKRLESFGYILKDGDKWLIGFVREKIENIIKLDCNIKTMPIELKEIEVDMIVGEFLFTKKNMGQLDIESINFEAVEKSISEGDTKVDFAIGSGSQTPEQRFDSLIAYLTTYGKNKILTFRCLRW
>NC_009089.1|WP_009896624.1|3402943_3403177_-|hypothetical-protein
MAQVRKLNRILTIEECKIDDFLEMGYDLIDETGKAVKYGKSLNVKDLIAENNILRSKVESLEEENKQLKEKNKLTKK

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

Click the colored protein region to show detailed information

Crispr_ID: NC_009089_20

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_20

3397192-3397617

Orphan

I-A

Consensus_repeat	Method
ATTTACATTCCATATAGTTAATCTAAAAC	CRISPRCasFinder
ATTTACATTCCATATAGTTAATCTAAAAC	CRT
GTTTTAGATTAACTATATGGAATGTAAAT	PILER-CR

6 spacers

The CRISPR arrays of NC_009089_20

>merge|NC_009089|20|3397192-3397617|CRISPRCasFinder,CRT,PILER-CR
ATTTACATACCACATAGTTAATCTAAAACCCTCTTTATTTTTAGAGAACATCCACTTTGTTATATTATTTACATACCACATAGTTAATATAAAACCTGTTAATGTAATCATTTCACCATCATAAGTTGCGAAATTTACATTCCATATAGTTAATCTAAAACGATTTTAGGTACTTATTTGATTGCATTAGGAAGTATAATTTACATTCCATATAGTTAATCTAAAACAAATAAGTTTGTATGATGCATTTAGATGGCATACAGTATTTACATTCCATATAGTTAATCTAAAACGAGAATTATATTGAACGATTAGGAGATATTGAAGAGTTATTTACATTCCATATAGTTAATCTAAAACACTTATATATTCCACCTCTACCATATAAAGACTCTACATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|20|18|3397192-3397617|CRISPRCasFinder
ATTTACATACCACATAGTTAATCTAAAAC	CCTCTTTATTTTTAGAGAACATCCACTTTGTTATATT
ATTTACATACCACATAGTTAATATAAAAC	CTGTTAATGTAATCATTTCACCATCATAAGTTGCGAA
ATTTACATTCCATATAGTTAATCTAAAAC	GATTTTAGGTACTTATTTGATTGCATTAGGAAGTATA
ATTTACATTCCATATAGTTAATCTAAAAC	AAATAAGTTTGTATGATGCATTTAGATGGCATACAGT
ATTTACATTCCATATAGTTAATCTAAAAC	GAGAATTATATTGAACGATTAGGAGATATTGAAGAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	ACTTATATATTCCACCTCTACCATATAAAGACTCTAC
ATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|20|8|3397192-3397617|CRT
ATTTACATACCACATAGTTAATCTAAAAC	CCTCTTTATTTTTAGAGAACATCCACTTTGTTATATT
ATTTACATACCACATAGTTAATATAAAAC	CTGTTAATGTAATCATTTCACCATCATAAGTTGCGAA
ATTTACATTCCATATAGTTAATCTAAAAC	GATTTTAGGTACTTATTTGATTGCATTAGGAAGTATA
ATTTACATTCCATATAGTTAATCTAAAAC	AAATAAGTTTGTATGATGCATTTAGATGGCATACAGT
ATTTACATTCCATATAGTTAATCTAAAAC	GAGAATTATATTGAACGATTAGGAGATATTGAAGAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	ACTTATATATTCCACCTCTACCATATAAAGACTCTAC
ATTTACATTCCATATAGTTAATCTAAAAC

>NC_009089|20|12|3397324-3397617|PILER-CR
ATTTACATTCCATATAGTTAATCTAAAAC	GATTTTAGGTACTTATTTGATTGCATTAGGAAGTATA
ATTTACATTCCATATAGTTAATCTAAAAC	AAATAAGTTTGTATGATGCATTTAGATGGCATACAGT
ATTTACATTCCATATAGTTAATCTAAAAC	GAGAATTATATTGAACGATTAGGAGATATTGAAGAGTT
ATTTACATTCCATATAGTTAATCTAAAAC	ACTTATATATTCCACCTCTACCATATAAAGACTCTAC
ATTTACATTCCATATAGTTAATCTAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861036.1\|3393095_3395447_-\|tape-measure-protein	unknown	unknown	gnl\|CDD\|131723
NC_009089.1\|WP_003429853.1\|3398856_3399297_-\|phage-portal-protein	unknown	unknown	gnl\|CDD\|378084
NC_009089.1\|WP_011861040.1\|3388679_3389729_-\|baseplate-J/gp47-family-protein	unknown	unknown	gnl\|CDD\|377414
NC_009089.1\|WP_009888836.1\|3402532_3402934_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861042.1\|3387254_3388058_-\|phage-tail-protein	unknown	unknown	gnl\|CDD\|372197
NC_009089.1\|WP_011861035.1\|3395517_3396087_-\|zinc-ribbon-domain-containing-protein	unknown	unknown	gnl\|CDD\|236014
NC_009089.1\|WP_011861039.1\|3389729_3390149_-\|DUF2634-domain-containing-protein	unknown	unknown	gnl\|CDD\|378510
NC_009089.1\|WP_003429844.1\|3402191_3402539_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_003429855.1\|3398354_3398516_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861032.1\|3399855_3401166_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377435
NC_009089.1\|WP_003429851.1\|3399368_3399839_-\|phage-tail-tube-protein	unknown	unknown	gnl\|CDD\|378178
NC_009089.1\|WP_011861037.1\|3392390_3393080_-\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|236880
NC_009089.1\|WP_011861030.1\|3401766_3402192_-\|HK97-gp10-family-phage-protein	unknown	unknown	gnl\|CDD\|377415
NC_009089.1\|WP_011861034.1\|3396130_3396691_-\|lipoprotein	unknown	unknown	unknown
NC_009089.1\|WP_009896624.1\|3402943_3403177_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274765
NC_009089.1\|WP_011861031.1\|3401167_3401344_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861038.1\|3390427_3392398_-\|cell-wall-hydrolase	unknown	unknown	gnl\|CDD\|366353
NC_009089.1\|WP_011861041.1\|3388069_3388687_-\|YmfQ-family-protein	unknown	unknown	gnl\|CDD\|378379
NC_009089.1\|WP_009901352.1\|3390153_3390414_-\|DUF2577-domain-containing-protein	unknown	unknown	gnl\|CDD\|378501
NC_009089.1\|WP_009901504.1\|3401336_3401774_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861036.1\|3393095_3395447_-\|tape-measure-protein	gnl\|CDD\|131723	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain. Proteins containing this domain are strictly bacterial, including bacteriophage and prophage regions of bacterial genomes. Most members are 800 to 1800 amino acids long, making them among the longest predicted proteins of their respective phage genomes, where they are encoded in tail protein regions. This roughly 80-residue domain described here usually begins between residue 100 and 250. Many members are known or predicted to act as phage tail tape measure proteins, a minor tail component that regulates tail length.	1.61877e-16
NC_009089.1\|WP_003429853.1\|3398856_3399297_-\|phage-portal-protein	gnl\|CDD\|378084	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC. This is a family of phage tail assembly chaperone proteins, TACs, from Gram-positive bacteriophages, in particular PBSX from Firmicutes.	8.20802e-57
NC_009089.1\|WP_011861040.1\|3388679_3389729_-\|baseplate-J/gp47-family-protein	gnl\|CDD\|377414	pfam04865, Baseplate_J, Baseplate J-like protein. The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologs, which are thought to have been horizontally transferred.	6.54674e-50
NC_009089.1\|WP_011861042.1\|3387254_3388058_-\|phage-tail-protein	gnl\|CDD\|372197	pfam12571, DUF3751, Phage tail-collar fibre protein. This domain family is found in bacteria and viruses, and is approximately 160 amino acids in length. There are two completely conserved residues (K and W) that may be functionally important. The members are annotated as being putative phage tail or tail-collar proteins.	1.66977e-58
NC_009089.1\|WP_011861035.1\|3395517_3396087_-\|zinc-ribbon-domain-containing-protein	gnl\|CDD\|236014	PRK07418, PRK07418, acetolactate synthase large subunit.	0.000331623
NC_009089.1\|WP_011861039.1\|3389729_3390149_-\|DUF2634-domain-containing-protein	gnl\|CDD\|378510	pfam10934, DUF2634, Protein of unknown function (DUF2634). Some members in this family of proteins are annotated as phage related, xkdS however currently there is no known function.	1.81684e-36
NC_009089.1\|WP_009896624.1\|3402943_3403177_-\|hypothetical-protein	gnl\|CDD\|274765	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition. [Mobile and extrachromosomal element functions, Plasmid functions].	0.000139844
NC_009089.1\|WP_003429851.1\|3399368_3399839_-\|phage-tail-tube-protein	gnl\|CDD\|378178	pfam09393, DUF2001, Phage tail tube protein. This is a family of phage tail tube proteins including protein XkdM from phage-like element PBSX protein whose structure adopts a beta barrel flanked with alpha helical regions.	2.40208e-57
NC_009089.1\|WP_011861037.1\|3392390_3393080_-\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|236880	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional.	3.86484e-11
NC_009089.1\|WP_011861030.1\|3401766_3402192_-\|HK97-gp10-family-phage-protein	gnl\|CDD\|377415	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component. This family of proteins is found in the caudovirales. It may be a tail component.	2.86254e-17
NC_009089.1\|WP_011861032.1\|3399855_3401166_-\|hypothetical-protein	gnl\|CDD\|377435	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain. This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	3.90974e-37
NC_009089.1\|WP_011861038.1\|3390427_3392398_-\|cell-wall-hydrolase	gnl\|CDD\|366353	pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.	3.23294e-31
NC_009089.1\|WP_011861041.1\|3388069_3388687_-\|YmfQ-family-protein	gnl\|CDD\|378379	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313). Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins.	7.80829e-43
NC_009089.1\|WP_009901352.1\|3390153_3390414_-\|DUF2577-domain-containing-protein	gnl\|CDD\|378501	pfam10844, DUF2577, Protein of unknown function (DUF2577). This family of proteins has no known function.	1.7145e-19

>NC_009089.1|WP_011861034.1|3396130_3396691_-|lipoprotein
MKKKVCFLFSILIVICLAIVGCSNSESPEESSKNNEPKKEEKKDKEVVIGEKIISDKMEITINNIEFSYDVLPKVKESLYTHYPAESGKVYIDIAADIKNTQKQELNCSDLLTIEANYNDGYKYSSQTIVEDETTGFTYDNISSIDPLETKGVRFIIDCPDEVKTSDKPVILSFTFDGNKYVYKMK
>NC_009089.1|WP_011861035.1|3395517_3396087_-|zinc-ribbon-domain-containing-protein
MDDIVEYIFCSECGAKCLKGSKFCSECGTEIADIKMLNESIIKEKEYDLKGIDLQHVMQETSFIKASSVRRLKELTGIELDDCRKILEEPYQKYYNENADMLEEKRKKEDDISKIRKAKEEKKEKEKIACCPACGSTSLTTHKKGFGIGKAITGATIAGGIGLVAGNIGAKKVRVTCLNCGKQFWAGKK
>NC_009089.1|WP_011861036.1|3393095_3395447_-|tape-measure-protein
MATIQTSIRIFDGMTPAFRNMTTSINTTINSLERLQGRLNNPLNTGGIQTSQQSLNNIESILTRIEQSIGKADEQQRKFNDDINKGASNTDRLLGSVKKVVGTYMGLKTIGGLANLSDQMTSTNARLNMINDGQLSDGGLNKMIFQSAERSRASYLDTAQIVSRIGMNAGSAFSSTREIVSFAEQLNKKFVIAGASTEEMNSALLQLTQGLGSGVLRGEELNAVFESAPNIIKSIADYLDVDIGKIRGMASEGMLTADIVKNSLLAASAETNAQFEKMPLTIGQIFTSIKNNAVMIFGAIQKKIEDTVSSGGFRTFIVNVTDSLYVLGAVGYSVFNGFIDLLSSPTFQGFANMMIVGISLITQGFGWLLTVLGSVINFISQGWSIIQPILITSIVLWGLYKTAVIAGALVTAIQVVWIALQTFWTNLLNGSLLTNIMMNIAAKISTDALSGSMLLLITTIVMVVAAVALVIAAIFVAVAIFNHFAGTSISATGVVVGAFYFLGTCIYDVFAGAWNIVMAFAEFFVNSFNIVIYNVQLLFYKFQNFVINAMGDVGGSFDNCATALANAFVSAANIAIKGINGVIKTLNLIPGVNIKTFGSLDKIDSFVKQYKDYQKTLKEPVKPAEWKAPTMKLKNPVDSFKKGYEVGQNLENKIKDAFDISKIAEKAKKDLGLDDLWDDKYGLGDRFGSAGLNSPLNNAAKGAKDTAGNTAKMAKTMDKSQEDLKYLRDIAEQETINRFTGVNIKIDMNNTNNISKDTDVDGIVNVLTEKLNDAMVVSAEGIV
>NC_009089.1|WP_011861037.1|3392390_3393080_-|LysM-peptidoglycan-binding-domain-containing-protein
MAYDFYLDGVQLPIPPPKLEIKVTNKNKTVDLINTGEVNILKKEGLSEISFEAEFTHNKLPFYRGAFRDVQFFLSKLELLKTDCKPFQFIVSREMGGKVLFNTNIKVSLEEYAISEDADNGSDTKVAIKLKQYRDYSTKKLVLAPPKNETGRPNVKIEPKRVDSVNATNTKTYTVKAGDSLWSICQKQLGNGSLYKKVYELNKSMMDKANKGKNLSKYTIYKGQVLKLG
>NC_009089.1|WP_011861038.1|3390427_3392398_-|cell-wall-hydrolase
MVDELVLANDRDVRLVIAHWEDFYEPAVIDGITWEIERRGTPSKLEFTIVMDDILEFCEGNSVRLYYKGIGIFYGYIFQKKRDKENHIKIVAYDQLRYFKNKDTYVYSNKTASELVKMLAKDFNLKYNVIEDTKYKISRVEENKTLFDMILTALDDTLREKKEMYVLYDDFGRITLKNVASMKLDTVMNNDVIEDFDYNSSIDSDTYTKIKLVRDNEESGKRDVYIAQDSAHMRSWGILQMFDTVDKNMSEAEIKQKCDILLKLYNKKTKSLSLKNALGDIRVRAGCLVPVFLDLGDIDLQNYMLVEKVKHTFENNSHFMDLTLVDGDEFASYSSSSYSSGNSNNKDEKKNGPAQSTTSKEDNDMINKLNKVFKNKLSNTGNIFVKYSNAYKVNAALMAAISIHETGNGSSSLCKNKNNFFGMKGMSFGSVDEGIKRGISNLSRNYIHTGRKTLESIRDKYAPLYDSPLNKDWVPGVGKFYKQITGNAYSSNSAGTGVGSNEEAEKNLKDTTYQVQNNNSNTLTNNNSKVSKVIQEAKNQLGKPYAWGGNGPKSFDCSGLMVWAFKRGAGINLKRVSADQSKDSRGKLLCNINDVKAGDLVFFAYNKGKGNVHHVGLYIGNDQYIHAPQTGDVVKISSLSGRQKKKHDFARARRFF
>NC_009089.1|WP_009901352.1|3390153_3390414_-|DUF2577-domain-containing-protein
MSQELLQIIKKAAMDAVETSNPMQIAFGTIESVNPLIVKIEQKASFEEFFLIQTETFKRYTDKKIGDKLVLIRMQGGQQYLILDRM
>NC_009089.1|WP_011861039.1|3389729_3390149_-|DUF2634-domain-containing-protein
MLPSDNLDYDIEDVSIINFDVRQEPSKTFKLNIEKSKIDGICDDVEALKQTIFLILNTERYEHLIYSWNYGVELNDLIGEPISFVIPELERRIKEALIQDDRVENVDNFEFQNVKGKVHCKFTVHSKYGNIKAEKVVSV
>NC_009089.1|WP_011861040.1|3388679_3389729_-|baseplate-J/gp47-family-protein
MFELMTFENIIKRMLDSVPDTFDKREGSIIYNALAPVAIELTETYIAMDELLDQTFVDTASYYYLEKRCKERGITPLSATNTIAKGVFNIDIPLDSRFNLGEYNYIAIERISEKTYKMKCETAGPIFELGKLIPIEYIDGLETAELTEILINGEDEESEDSLRQRYYDSLNSQSFGGNMQNYKDEVNKIQDVGGVKVYPVWDGGGTVKLVIINSNFKVPSEDLVNLVQEEIDPIGHQGQGLGLAPIGHKVTVTGVVSTTINISAEITYKNGYTWENIKSIAEEAIDDYLNELNMSWEDEENLIVRISQIETRLLSIDGVLDITNTMINDVKSNLTIDSNSIVVRGEVVG
>NC_009089.1|WP_011861041.1|3388069_3388687_-|YmfQ-family-protein
MDKEINLINYLPQILQDKEEYIKVFNVENKEIKTLHEKLNDLSSDQFLEDLTPSGIKRWEKIMSITPKSNESLEDRRFRIFSKYISKLPYSERFLRNWLDSIVGEGNYELTINNATYNIHLESDARNQDWFEEVHSFVSNIKPCNMTLDYTRVLISKDNYMNFGITTLMGQEITIYPWSPPDIETYGEIDVLTGNGVGYQEITIF
>NC_009089.1|WP_011861042.1|3387254_3388058_-|phage-tail-protein
MAIDKSYYTIITDVGKAKIANASVTGNKVGFVKIQLGDGGGSEYTPTESQTALKNVVWEGNIGNTTTDETAPNCIILESLIPSSVGGFMIREIGYLDDENNLIAISKYKECYKPSIEQGAVVDMKVKTVLIVSNVNNIELKIDPTIIFATLKDIQELETKIGTINTKIDTTKTELTSNIETAKTELSNKIGDTTQLNTTDKTNIVSALNEVKTSVDSIETTAEKTSYNNATSKLTATTVQGAIDEVVAKIENFNEVNISIQNDMLPI
>NC_009089.1|WP_003429855.1|3398354_3398516_-|hypothetical-protein
MNNFLLNVIAGVIASLIFCLICKVFLKVKSHSTRGKSKSGWEFDFKIKFHKFK
>NC_009089.1|WP_003429853.1|3398856_3399297_-|phage-portal-protein
MSNLSAFLSQNAIKVDNVKYVASNRFLDKEGKPVEWELKVLSSEEDEALRRKCTKRVKVIGNNGKHTGQYTSEIDYNSYVAELCVASTVFPDLKDAELQNSYGVMGEAQLLKTMLTAGEYVNYTVKVNEVNGFDTSFEDKVEEAKN
>NC_009089.1|WP_003429851.1|3399368_3399839_-|phage-tail-tube-protein
MAQTINAKDTVSAKKAECFITIEGKRYNFMQAIDLEAKMEKNKSEVPILGRTTKGNKTTGSTNTGSATFHYNTSIFRELLYRYKETGEDIYFDIQVTNEDPTSAVGRQTVVLKDCNMDSGIITKFDADGEYLDEDMDFTFEDWELVEKFNLLAGME
>NC_009089.1|WP_011861032.1|3399855_3401166_-|hypothetical-protein
MALGGGTFVTQNKILPGSYINFISAKRATSSLSDRGIVAIPLELDWGIDEDVFQVTSDDFEKYSVKYFGYDYTHEKLKGLRDLFKNIRLGYFYKLNKGVKASCTIATAKYSGIRGNDLKVTVTTNIDDNAKFDVVTLLDNKKVDTQIAKVITDLQDNDYITWKKDATLEASAGLVFTGGTNGEAVTGAEYQAFLDKIESYSFNALGCLATTTEIKSLFVEFTKRMRDKVGAKFQTVLYKKSDADYEGVVSVENKIKEIGLVESSLIYWAAGAIAGCDINKSNTNKKYDGEFDVDVNYTQIQLEEALKTGKFIFHKVGDEVHVLEDINTFVSFTDDKNDDFSSNQSVRVLDQIANDIATLFNEKYLGKVPNDKAGRISFWNDVVKHHKELENIRAIEDFKTDDVSVELGNDKKTVIVSDAVKVINAMSKLYMTVSVN
>NC_009089.1|WP_011861031.1|3401167_3401344_-|hypothetical-protein
MNKTLSKEDNYKFTKEQIVNSKKYVNRKDLLNAILKENDLYSFSEVEEIINSFMKGVS
>NC_009089.1|WP_009901504.1|3401336_3401774_-|hypothetical-protein
MLNNIIDGISVKLDKSFGEKYTIYSEDVEQGINEPCFFIVPLNPSKTPYPSGRELKKNSFDVHYFPHSEDKNFEINEIAEMLLEELEYIEIDGDLVRGTNMNFEIIDNVLHFFVDYNYFTIKSNDTDKMDTVELFGGLKRGDNFE
>NC_009089.1|WP_011861030.1|3401766_3402192_-|HK97-gp10-family-phage-protein
MARWGSVDFREFKRVCKKMEELTKIDLDKFCKDAARELAARLLGKVIRRTPVDTGFLRQGWNGVAYARSLPVYKQGNNYIIEVVNPTEYASYVEYGHRTKGGKGWVKGQHFLTISEMELQGQVDKIIEKKLLILLKGVFDA
>NC_009089.1|WP_003429844.1|3402191_3402539_-|hypothetical-protein
MVSKTRKAIEMLYRDKCTIVEYQPIKDPVTKRTNNKEVIVLENQPCKLSYKNIVSATEGKVAKLEQTIKLFISPDIEIKAGSKLIINDKEYVRSGESAIYPNHQEIILELFKDKA
>NC_009089.1|WP_009888836.1|3402532_3402934_-|hypothetical-protein
MENNIIDEIEKRLESFGYILKDGDKWLIGFVREKIENIIKLDCNIKTMPIELKEIEVDMIVGEFLFTKKNMGQLDIESINFEAVEKSISEGDTKVDFAIGSGSQTPEQRFDSLIAYLTTYGKNKILTFRCLRW
>NC_009089.1|WP_009896624.1|3402943_3403177_-|hypothetical-protein
MAQVRKLNRILTIEECKIDDFLEMGYDLIDETGKAVKYGKSLNVKDLIAENNILRSKVESLEEENKQLKEKNKLTKK

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Crispr_ID: NC_009089_21

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_21

3455483-3456758

Unclear

I-A

Consensus_repeat	Method
ATTTACATACCACTTAGTTAATATAAAAC	CRISPRCasFinder
ATTTACATACCACTTAGTTAATATAAAAC	CRT
GTTTTATATTAACTAAGTGGTATGTAAAT	PILER-CR

19 spacers

cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL

The CRISPR arrays of NC_009089_21

>merge|NC_009089|21|3455483-3456758|CRISPRCasFinder,CRT,PILER-CR
ATTTAGATATGATTTAGTTAATATAAGGTGGATGTTTTAGTATATGCTATTGTTGATTCTACAATTTTATATACTGCTTTATTAATATAAAATAAGTTTCTAAATACTCGTTGATATTGCTAATATTCTACTTATCTACCACTTAGTTGATATAAAACCTGACACTGTGTCTTGTGTGAGTCTTTTCTTTATCCTATTTACATACCACTTAGTTAATATAAAACCGGTCGTAACGTGTCAATCCTATTGGGTTTTAGATAATTTACATACCACTTAGTTAATATAAAACAAGAAAGAGCTATTGAAGCATTAAACAGAATACAGGATTTACATACCACTTAGTTAATATAAAACCGTCTACTGTTGCATCATTTAGTGACCTAGCACTTTGATTTACATACCACTTAGTTAATATAAAACATTTATATAAGTATGCAGGTGAGGGGATTTTTTGATAATTTACATACCACTTAGTTAATATAAAACTATTAAAAAATTACTACCTTTAAGTTGACCTTTTAAAATTTACATACCACTTAGTTAATATAAAACAAATATTAGATAGAATAGGGATAAATGAAGAATATGATTTACATACCACTTAGTTAATATAAAACCAGAGATAGAAATTATTTTTATTATACGTTTTTTTGTATTTACATACCACTTAGTTAATATAAAACTAATTTGTTCTATTTTTTTATCTAGTAACTTAATTGGATTTACATACCACTTAGTTAATATAAAACAACTACATATAAATAAATTCAAAGCCATGAAATTCGATTTACATACCACTTAGTTAATATAAAACACGGATACTTTCTTTTCTTGCATCAGCATTTTGTTTCAATTTACATACCACTTAGTTAATATAAAACTATAATATAATGTTTAGTATAACTAAATAATTTTGAATTTACATACCACTTAGTTAATATAAAACCTTATGGTACTCTTACAAGAGTAGAAGGTGTATACCTATTTACATACCACTTAGTTAATATAAAACAGAATAAGATAACAACAATAGAATATAAAAATATCGTATTTACATACCACTTAGTTAATATAAAACTATTAAAATCTGTGAAAAATGCTTGGATGCCAACTCGATTTACATACCACTTAGTTAATATAAAACGTTATTCAGATGCATATAAAAACGCAGGTCAAACCTTATTTACATACCACTTAGTTAATATAAAACAAATTGAAGTAATAAAGAAAATAAGCTATGAAGCTAAATTTACATACCACTTAGTTAATATAAAAC

>NC_009089|21|19|3455483-3456758|CRISPRCasFinder
ATTTAGATATGATTTAGTTAATATAAGGT	GGATGTTTTAGTATATGCTATTGTTGATTCTACAA
TTTTATATACTGCTTTATTAATATAAAAT	AAGTTTCTAAATACTCGTTGATATTGCTAATATTCT
ACTTATCTACCACTTAGTTGATATAAAAC	CTGACACTGTGTCTTGTGTGAGTCTTTTCTTTATCCT
ATTTACATACCACTTAGTTAATATAAAAC	CGGTCGTAACGTGTCAATCCTATTGGGTTTTAGATA
ATTTACATACCACTTAGTTAATATAAAAC	AAGAAAGAGCTATTGAAGCATTAAACAGAATACAGG
ATTTACATACCACTTAGTTAATATAAAAC	CGTCTACTGTTGCATCATTTAGTGACCTAGCACTTTG
ATTTACATACCACTTAGTTAATATAAAAC	ATTTATATAAGTATGCAGGTGAGGGGATTTTTTGATA
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAAAATTACTACCTTTAAGTTGACCTTTTAAA
ATTTACATACCACTTAGTTAATATAAAAC	AAATATTAGATAGAATAGGGATAAATGAAGAATATG
ATTTACATACCACTTAGTTAATATAAAAC	CAGAGATAGAAATTATTTTTATTATACGTTTTTTTGT
ATTTACATACCACTTAGTTAATATAAAAC	TAATTTGTTCTATTTTTTTATCTAGTAACTTAATTGG
ATTTACATACCACTTAGTTAATATAAAAC	AACTACATATAAATAAATTCAAAGCCATGAAATTCG
ATTTACATACCACTTAGTTAATATAAAAC	ACGGATACTTTCTTTTCTTGCATCAGCATTTTGTTTCA
ATTTACATACCACTTAGTTAATATAAAAC	TATAATATAATGTTTAGTATAACTAAATAATTTTGA
ATTTACATACCACTTAGTTAATATAAAAC	CTTATGGTACTCTTACAAGAGTAGAAGGTGTATACCT
ATTTACATACCACTTAGTTAATATAAAAC	AGAATAAGATAACAACAATAGAATATAAAAATATCGT
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAATCTGTGAAAAATGCTTGGATGCCAACTCG
ATTTACATACCACTTAGTTAATATAAAAC	GTTATTCAGATGCATATAAAAACGCAGGTCAAACCTT
ATTTACATACCACTTAGTTAATATAAAAC	AAATTGAAGTAATAAAGAAAATAAGCTATGAAGCTAA
ATTTACATACCACTTAGTTAATATAAAAC

>NC_009089|21|9|3455612-3456758|CRT
ACTTATCTACCACTTAGTTGATATAAAAC	CTGACACTGTGTCTTGTGTGAGTCTTTTCTTTATCCT
ATTTACATACCACTTAGTTAATATAAAAC	CGGTCGTAACGTGTCAATCCTATTGGGTTTTAGATA
ATTTACATACCACTTAGTTAATATAAAAC	AAGAAAGAGCTATTGAAGCATTAAACAGAATACAGG
ATTTACATACCACTTAGTTAATATAAAAC	CGTCTACTGTTGCATCATTTAGTGACCTAGCACTTTG
ATTTACATACCACTTAGTTAATATAAAAC	ATTTATATAAGTATGCAGGTGAGGGGATTTTTTGATA
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAAAATTACTACCTTTAAGTTGACCTTTTAAA
ATTTACATACCACTTAGTTAATATAAAAC	AAATATTAGATAGAATAGGGATAAATGAAGAATATG
ATTTACATACCACTTAGTTAATATAAAAC	CAGAGATAGAAATTATTTTTATTATACGTTTTTTTGT
ATTTACATACCACTTAGTTAATATAAAAC	TAATTTGTTCTATTTTTTTATCTAGTAACTTAATTGG
ATTTACATACCACTTAGTTAATATAAAAC	AACTACATATAAATAAATTCAAAGCCATGAAATTCG
ATTTACATACCACTTAGTTAATATAAAAC	ACGGATACTTTCTTTTCTTGCATCAGCATTTTGTTTCA
ATTTACATACCACTTAGTTAATATAAAAC	TATAATATAATGTTTAGTATAACTAAATAATTTTGA
ATTTACATACCACTTAGTTAATATAAAAC	CTTATGGTACTCTTACAAGAGTAGAAGGTGTATACCT
ATTTACATACCACTTAGTTAATATAAAAC	AGAATAAGATAACAACAATAGAATATAAAAATATCGT
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAATCTGTGAAAAATGCTTGGATGCCAACTCG
ATTTACATACCACTTAGTTAATATAAAAC	GTTATTCAGATGCATATAAAAACGCAGGTCAAACCTT
ATTTACATACCACTTAGTTAATATAAAAC	AAATTGAAGTAATAAAGAAAATAAGCTATGAAGCTAA
ATTTACATACCACTTAGTTAATATAAAAC

>NC_009089|21|13|3455678-3456758|PILER-CR
ATTTACATACCACTTAGTTAATATAAAAC	CGGTCGTAACGTGTCAATCCTATTGGGTTTTAGATA
ATTTACATACCACTTAGTTAATATAAAAC	AAGAAAGAGCTATTGAAGCATTAAACAGAATACAGG
ATTTACATACCACTTAGTTAATATAAAAC	CGTCTACTGTTGCATCATTTAGTGACCTAGCACTTTG
ATTTACATACCACTTAGTTAATATAAAAC	ATTTATATAAGTATGCAGGTGAGGGGATTTTTTGATA
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAAAATTACTACCTTTAAGTTGACCTTTTAAA
ATTTACATACCACTTAGTTAATATAAAAC	AAATATTAGATAGAATAGGGATAAATGAAGAATATG
ATTTACATACCACTTAGTTAATATAAAAC	CAGAGATAGAAATTATTTTTATTATACGTTTTTTTGT
ATTTACATACCACTTAGTTAATATAAAAC	TAATTTGTTCTATTTTTTTATCTAGTAACTTAATTGG
ATTTACATACCACTTAGTTAATATAAAAC	AACTACATATAAATAAATTCAAAGCCATGAAATTCG
ATTTACATACCACTTAGTTAATATAAAAC	ACGGATACTTTCTTTTCTTGCATCAGCATTTTGTTTCA
ATTTACATACCACTTAGTTAATATAAAAC	TATAATATAATGTTTAGTATAACTAAATAATTTTGA
ATTTACATACCACTTAGTTAATATAAAAC	CTTATGGTACTCTTACAAGAGTAGAAGGTGTATACCT
ATTTACATACCACTTAGTTAATATAAAAC	AGAATAAGATAACAACAATAGAATATAAAAATATCGT
ATTTACATACCACTTAGTTAATATAAAAC	TATTAAAATCTGTGAAAAATGCTTGGATGCCAACTCG
ATTTACATACCACTTAGTTAATATAAAAC	GTTATTCAGATGCATATAAAAACGCAGGTCAAACCTT
ATTTACATACCACTTAGTTAATATAAAAC	AAATTGAAGTAATAAAGAAAATAAGCTATGAAGCTAA
ATTTACATACCACTTAGTTAATATAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_011861774.1\|3466605_3468522_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|376899
NC_009089.1\|WP_003429956.1\|3448783_3449374_-\|dipicolinate-synthase-subunit-B	unknown	unknown	gnl\|CDD\|181370
NC_009089.1\|WP_011861773.1\|3465408_3466326_-\|WYL-domain-containing-protein	WYL	pfam13280_WYL_CAS-I:CAS-III	gnl\|CDD\|379100
NC_009089.1\|WP_003439780.1\|3456941_3457208_-\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_009089.1\|WP_011861765.1\|3451722_3452859_-\|thiolase-family-protein	unknown	unknown	gnl\|CDD\|238383
NC_009089.1\|WP_009898073.1\|3453759_3454539_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861769.1\|3458759_3461081_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|273707
NC_009089.1\|WP_003439757.1\|3442723_3444943_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|238923
NC_009089.1\|WP_011861763.1\|3448376_3448577_+\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_022621524.1\|3445218_3447873_-\|bifunctional-acetaldehyde-CoA/alcohol-dehydrogenase	unknown	unknown	gnl\|CDD\|237515
NC_009089.1\|WP_011861770.1\|3461794_3462709_-\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818
NC_009089.1\|WP_009891255.1\|3452890_3453436_-\|biotin-transporter-BioY	unknown	unknown	gnl\|CDD\|376871
NC_009089.1\|WP_011861772.1\|3464593_3465331_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	pfam01881_cas6_CAS-I:CAS-III	gnl\|CDD\|187783
NC_009089.1\|WP_003439770.1\|3449376_3450252_-\|dipicolinate-synthase-subunit-DpsA	unknown	unknown	gnl\|CDD\|181371
NC_009089.1\|WP_009903365.1\|3458193_3458712_-\|CRISPR-associated-protein-Cas4	cas4	pfam01930_cas4_CAS-I	gnl\|CDD\|366863
NC_009089.1\|WP_011861768.1\|3457210_3458191_-\|type-I-B-CRISPR-associated-endonuclease-Cas1	cas1	cd09722_cas1_CAS-I-B	gnl\|CDD\|274695
NC_009089.1\|WP_011861771.1\|3462710_3464588_-\|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1	cas8b2	cd09665_cas8b2_CAS-I-B	gnl\|CDD\|187796
NC_009089.1\|WP_011861766.1\|3454993_3455422_-\|N-acetyltransferase	unknown	unknown	gnl\|CDD\|236715
NC_009089.1\|WP_003439785.1\|3461091_3461793_-\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cd09658_cas5_CAS-I-B	gnl\|CDD\|187789
NC_009089.1\|WP_011861764.1\|3450327_3451719_-\|long-chain-fatty-acid--CoA-ligase	unknown	unknown	gnl\|CDD\|341288

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_011861774.1\|3466605_3468522_-\|ABC-transporter-permease	gnl\|CDD\|376899	pfam02687, FtsX, FtsX-like permease family. This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola LolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both LolC and Streptococcus cristatus TptD have been shown to require ATP. This region contains three transmembrane helices.	5.3036e-09
NC_009089.1\|WP_003429956.1\|3448783_3449374_-\|dipicolinate-synthase-subunit-B	gnl\|CDD\|181370	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed.	6.40655e-126
NC_009089.1\|WP_011861773.1\|3465408_3466326_-\|WYL-domain-containing-protein	gnl\|CDD\|379100	pfam13280, WYL, WYL domain. WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.	2.04461e-40
NC_009089.1\|WP_003439780.1\|3456941_3457208_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. 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; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	3.64696e-28
NC_009089.1\|WP_011861765.1\|3451722_3452859_-\|thiolase-family-protein	gnl\|CDD\|238383	cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and eukaryotes (cytosol, microbodies and mitochondria). There are 2 functional different classes: thiolase-I (3-ketoacyl-CoA thiolase) and thiolase-II (acetoacetyl-CoA thiolase). Thiolase-I can cleave longer fatty acid molecules and plays an important role in the beta-oxidative degradation of fatty acids. Thiolase-II has a high substrate specificity. Although it can cleave acetoacyl-CoA, its main function is the synthesis of acetoacyl-CoA from two molecules of acetyl-CoA, which gives it importance in several biosynthetic pathways.	6.21209e-108
NC_009089.1\|WP_022621524.1\|3445218_3447873_-\|bifunctional-acetaldehyde-CoA/alcohol-dehydrogenase	gnl\|CDD\|237515	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional.	0
NC_009089.1\|WP_003439757.1\|3442723_3444943_-\|EAL-domain-containing-protein	gnl\|CDD\|238923	cd01948, EAL, EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.	2.85244e-106
NC_009089.1\|WP_011861769.1\|3458759_3461081_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|273707	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.	2.16994e-57
NC_009089.1\|WP_011861770.1\|3461794_3462709_-\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	2.34143e-53
NC_009089.1\|WP_009891255.1\|3452890_3453436_-\|biotin-transporter-BioY	gnl\|CDD\|376871	pfam02632, BioY, BioY family. A number of bacterial genes are involved in bioconversion of pimelate into dethiobiotin. BioY is a component of the BioMNY transport system involved in biotin uptake in prokaryotes.	2.43536e-36
NC_009089.1\|WP_011861772.1\|3464593_3465331_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|187783	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6. 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; Cas6 is an endoribonuclease that generates crRNAs, predicted subunit of Cascade complex; RAMP superfamily protein; Possesses double RRM/ferredoxin fold.	1.04448e-20
NC_009089.1\|WP_003439770.1\|3449376_3450252_-\|dipicolinate-synthase-subunit-DpsA	gnl\|CDD\|181371	PRK08306, PRK08306, dipicolinate synthase subunit DpsA.	7.8671e-132
NC_009089.1\|WP_009903365.1\|3458193_3458712_-\|CRISPR-associated-protein-Cas4	gnl\|CDD\|366863	pfam01930, Cas_Cas4, Domain of unknown function DUF83. This domain has no known function. The domain contains three conserved cysteines at its C-terminus.	2.41245e-60
NC_009089.1\|WP_011861768.1\|3457210_3458191_-\|type-I-B-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274695	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP. 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 Cas1 subgroup that includes Cas1 proteins of the related HMARI and TNEAP subtypes of CRISPR/Cas system.	3.9709e-174
NC_009089.1\|WP_011861771.1\|3462710_3464588_-\|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1	gnl\|CDD\|187796	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1. 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; Large proteins, some contain Zn-finger domain; signature gene for I-A subtype; also known as CXXC_CXXC family.	1.68479e-22
NC_009089.1\|WP_011861766.1\|3454993_3455422_-\|N-acetyltransferase	gnl\|CDD\|236715	PRK10562, PRK10562, putative acetyltransferase; Provisional.	1.49396e-48
NC_009089.1\|WP_003439785.1\|3461091_3461793_-\|type-I-B-CRISPR-associated-protein-Cas5	gnl\|CDD\|187789	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5. 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; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	4.28951e-66
NC_009089.1\|WP_011861764.1\|3450327_3451719_-\|long-chain-fatty-acid--CoA-ligase	gnl\|CDD\|341288	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA. This family of acyl-CoA ligases includes Bacillus subtilis YhfT, as well as long-chain fatty acid-CoA ligase VraA, all of which are as yet to be characterized. These proteins belong to the adenylate-forming enzymes which catalyze an ATP-dependent two-step reaction to first activate a carboxylate substrate as an adenylate and then transfer the carboxylate to the pantetheine group of either coenzyme A or an acyl-carrier protein. The active site of the domain is located at the interface of a large N-terminal subdomain and a smaller C-terminal subdomain	1.30605e-147

>NC_009089.1|WP_011861766.1|3454993_3455422_-|N-acetyltransferase
MIKKLNSKDINKIMEIWEKSTIKAHDFISKEYWQNNYNTVKNEYIPISDTFVYDDGDEIKGFISIIDKRFIGALFIKPKYQNLGIGGKLLDYATKKYKSLSLAVYKDNKKAVVFYNKKGFNIVKEQVNEDSGFKEYIMEYSK
>NC_009089.1|WP_009898073.1|3453759_3454539_+|hypothetical-protein
MKVNENNINNIDEELDELSRKVYLESPDFWISISDKIIDKVFDEMLLFFAVKYNYFNIVCFAIENNYLDLNMPSKNKKYTNIMEHLLDTSKQNEDKKIYNYLLSLNKGNNLDERPILDELNCNISSDTFEKKDIYLPKYLCPSCNSNIFDTGYKVSNDITYKFSSKEAEPIEMCSEVSSIRCCNCDELLEDITLDKLYNLCKIQNCNNCGSNLTKVGIIAKKKMNFDENTEKFKDVSTSYCCGNCDSEINLSQREHFKI
>NC_009089.1|WP_009891255.1|3452890_3453436_-|biotin-transporter-BioY
MKNTKVNIQDLTKMSICVALLCISSYIYIPLPFTPAGVTAQTIMINLIALILTPRQAFSTVGVYIMIGLIGIPVFGGGTSGIGKLLSPTGGFYFGFLFAALIISLLKGRNNDIKRYILITIFVGMPIIYFMGTVFMCYFNQMTVEAALFAAVVPFLIGDTIKSVIASFLGTKLNNVLRRNL
>NC_009089.1|WP_011861765.1|3451722_3452859_-|thiolase-family-protein
MKKVFILGGLRSHIGLKNGIFQFVQPELLGASVLKDLIKKYEIDKIDEIICGNAVGTGGNIARLMTLTAGVSNEVPAFTVDMQCASAMMSIDIAFSKVKSGQCDLIIAGGFESSSLQPMRTYHKNDKRYNTNNPNYTVAQFSPDDNSQNSMLEGAERVAELYQIEKADLDFWVKESHKRAKEAREEKILEDIISPINNSTCDEGIRDKMSQRLLDRMPSILGKETITNAANSCLINDGASFIIICSKKYLEHVKKKPKAKIINTCTIGTDATLSPTSAIQAMDKLLEIESINYLDVSAVEFNEAFAVIDVLFQRKYPELIDRYNIFGGALAYGHPYGASGAIIALHLLKALEKTKGRYGICSIAAAGGLGSALLLERV
>NC_009089.1|WP_011861764.1|3450327_3451719_-|long-chain-fatty-acid--CoA-ligase
MNYYELLRIKKERHKNKNFLIIDGEKYTYENILSYSEELGKQISLGENIPILIYSKNIMFQLISFFAINYSKNIPIICHYNLSKKVLDDILLKNNISIIISDESMDVIDLYDDNNNEVAKKVNFSIFNPKFNIYMYQYKNLINYLDKSICMGALSSGSTSVPKVLYRTYKSWAGFFPIQNDIFNISGESILFVNGTLSFTGNLNSIMSVLYEGGSIVISSGLNCKSWIRTIKQYNVTNIYLIPTKLQLLVRHLKEPVLKVVSIFTGSQLLFEDTARNLKKYMPKSEIILYYGASELNYITYLCYDELIEKPLSVGRPFPGIDIYIREGKIFVNTEYAVYNVTKPYSVNDIGYYDNDGYLIFEGRSDDIINIGGFKVSSTKIENEVKKIPQIEDAIVLPYSDTIRGNQIVLFVITIDKITKKDLLIKMKDNLMKNEIPKKIIFLNSFPYTSSEKIDRLALLKML
>NC_009089.1|WP_003439770.1|3449376_3450252_-|dipicolinate-synthase-subunit-DpsA
MSNQYDITVIGGDLRQVYMVKKLINKGYSVVTYGISNEIINGIVGKSTSLAEALSKSSIILCPIPFTKNQVNIENTDDCLDATIDNLLINLSPNQILFGGNIPTKVCKFCEQHSIQIYDFMKMNDVAILNAVATAEGAIAEAIKRSIINIHQSNCLVLGYGRCAQILAKKLYALDANVCVGARNNDARSTANAFGYSSISLSQLDEKLLQFDYIFNTIPECILTKERLEKVSQEVTIIDIASSPGGVDYSVVKEAGINATLCLGLPGKYSPKTSGEILVNAIENIINERRD
>NC_009089.1|WP_003429956.1|3448783_3449374_-|dipicolinate-synthase-subunit-B
MRLEGLTIGVGFTGSFCTYDKIFIELENLVKEGANVHTIFSDVSQNIDCRFGNSEEFMKKAYELTGNKPIVTIEEAEPFGPKGIADIIIIAPCTGNTAAKLANGITDSPVLMAAKGHLRNDKPLVISISTNDALSFNFKNIGILLNSKNIYFVPFGQDNCKAKPNSMIAHTELIIPTIELALENKQLQPVIKSPHQ
>NC_009089.1|WP_011861763.1|3448376_3448577_+|hypothetical-protein
MKKLKTISVFSLIISVILTIGGIGIVTYYVDNLFIRGLSVFVLIMSSSFVSTTVRLIFEESKRYKF
>NC_009089.1|WP_022621524.1|3445218_3447873_-|bifunctional-acetaldehyde-CoA/alcohol-dehydrogenase
MAHKEQVIIENKKENEVMSVGLDTVNNVESLVKKLAKIREAQKIFATYSQEQVDKIFLAASLAANKQRVPLAIMAQKETGMGIAEDKVIKNHYASEYIYNAYKETKTCGVIEKDEAFGMTKIAEPIGVIAAVVPTTNPTSTAIFKALLALKTRNGIIFSPHPRAKNSTIEAAKVVLEAAVLAGAPEGIIGWIDEPSLELTTTVMKEVDLTLATGGPGMVKSAYSSGKPAIGVGAGNTPAIIDDSADIKTAVNSILVSKTFDNGMICASEQSVIVLENIYNEVKKEFKERGAYLLDKDETEKIRNIILVNGGLNSKIVGQTACTIAKLAGFEVPVDTKVLIGEVESVEIEEAFAHEKLSPVLAMYKASDFDDAVRKAEKLVEDGGFGHTSSLYIDDVNQREKLDKFTSAMKTCRILINTPSSQGGIGDLYNFKLAPSLTLGCGSWGGNSVSENVGVKHLLNIKTVAERRENMLWFRAPEKVYFKKGCLGVALKELKDVMNKKRAFIVTDTFLYNNGYTKAVTDLLDEMNIKHTTFFEVEPDPTLECAKIGAKAMREFNPDVIISIGGGSAMDAGKIMWTLYEHPDVDFQDLAMRFMDIRKRVYTFPKMGEKANFVAIPTSAGTGSEVTPFAVITDQDTGVKYPLADYELMPNMAIVDSDMMMNMPKSLTSASGIDALTHALEAYVSMLATDYTNGLALQAIKSIFEYLPRAYDNGAKDPEAREKMANASTMAGMAFANAFLGVCHSMAHKLGAFHHVPHGVANALLITEVMKFNSSDAPKKMGAFSQYKYPEALKRYAGIASFLGLKGNSDEEKFQSLLVAIEDLKLKVGIPKSIKEFGVEESKFMDSIDEMVIQAFDDQCTGANPRYPLMNEIKDMYLNSYYGR
>NC_009089.1|WP_003439757.1|3442723_3444943_-|EAL-domain-containing-protein
MTGRNKSFTLITILFLTSLFLTMGYIYIEDTKHLLMSEAKIHIKEVAVQGSQLAQRQIEKDLDVLNIFSNYYASNPDIPNEEKMKNLLDEMENQKFYTMAIVDINGNAENTKGDKFSVKDREFFKNSIKGKKYVSSPYVDEVNKSIKKIAISVPLLNNDKVVGVLYCTYNINTLMKLINISFYENNSISYVVKNNGTIILHPQGDSLSKNIYKLLKQDNDIQEVNRLKKELQENKTGATVLNMLEERRYLGYATMDNGNSENNYIKDWNLIFSIPETVVFSNSKQIINRAVYAVLSIVLIFIAIIFYIIYIKKSNEKEILSLAYEDKVTYIGNQNKFYRECSKYLLDKPSLNYIIVYFDINNFKMINDTFGYEFGDNLLITIAKALKEELTEGEVYARLSSDYFAIFCDYKNGRNKIIRKLDNIRSNIESNLSIVFEISLCVGIYFVEEGEVDIQKAVNKANMARSVAKGKNINYAIYNEDVRNKLSEESMILDDIKIALVKNQFEVYYQPKFSLVTGEMIGSEALIRWNHPEHGFISPAVFIPIAEKSKLILKIGRFVFERVCNDLYEWKKQGKKIVPVSVNLSRVELYQPDIVKFINKTIKMYNLSSDFIEIEITETVAINELNILKNVLNELRTYGFSISMDDFGTGYSSISCLRDMPIDILKLDKSFLGGIEHDERSRNIAKSIVSLAKSLDLVVIIEGVESKEQAELMKQFGCDLVQGFYFARPMPAKNFLDLL
>NC_009089.1|WP_003439780.1|3456941_3457208_-|CRISPR-associated-endonuclease-Cas2
MFVIVTYDIVEARSLNRIRRILRKYLTWTQNSVFEGNITEGKLHKCISEIENIIDNSEDSIYVYEIKNPNSIKKKCYGIDKYSDEMFI
>NC_009089.1|WP_011861768.1|3457210_3458191_-|type-I-B-CRISPR-associated-endonuclease-Cas1
MYKDYYIISNGDIKRKENTIYYYNLEGEKKILPVEQVDDIHIYGEVDLNTKLINYISKYGVMLHFYNYYGYYSGTYYPRKKNVSGFSLVCQSACYLDKNERLYLAKSFVESASYHILRNMRYYKVDESLIDTIKDELNDLNDVKEISELMGKEGRIRKTYYKSFNQILKDDFEFYKREKRPPKDPVNALMSFGNSIMYTNVLSEIYKTQLDPTISFLHEPSTKRFSLSLDIAEIFKPIIIDTIIFSLINNKRINKNDFEYQDKICYLSEKGKKKFLQEFENKMQTTIKHRNLNRKVSYRMFIRLECYKLIKHFINDERYKVLKVWW
>NC_009089.1|WP_009903365.1|3458193_3458712_-|CRISPR-associated-protein-Cas4
MPIDLEVLKVQGVKINYYYVCKRKLWLFSKGITMEQNSSRVLSGKIVHEDSYKRMKNKEILIDDILKLDIIKDEYVKEVKISSKMKEADEMQLYYYLYYLKNSMGIEKKGTINYVKEKKQEELILTEEKERIIENTLININEINMQLSPPKIEKKHYCTKCAYYEFCFVKEE
>NC_009089.1|WP_011861769.1|3458759_3461081_-|CRISPR-associated-helicase/endonuclease-Cas3
MLYAKSNPVETLREHTDELLKQMNVLRESYGKNINSLDFLEEEIFWQLLDFVIEFHDIGKAFSPFQELIKSRMDTKINEPKIVTHLENNVGHNYLSPAFIDYSYIDRKKNKELRAVLNQVIVYHHERDIFIDKDFKNLIQKILDEDLINKVYELQHEFKVRYPIKTEKLSKVYLQSVEKRIDKNHKYYNLYIMLKGILHRLDHSASAHEVVECNNVINIGEQTENYLMKEFGSLREAQSFAKSNRNKNIILIAPTGMGKTETALIWIDKDKAFFTLPLRVSINALFDRAKNIVGVGESNDTFLGLLHSTAIDYLEESNQENSSEIVDLAKLLSCKLTFSTIDQIFKFPFLYRGYEKVYSTLAYSKVVIDEIQAYSPEIAAVLVKGIEMIHKIGGRFMIMTATMPTIYIDELKKRGVMNSNLAELTCNTEKIRHCVSIVENSIDENLGKIIQSGMNKKVLVIVNTVKSAVEKYELIEEIVKPKGIDVNLNLLHSMYIQEDRAKLEKYIKEFADSDSNGIWITTQLVEASLDIDFDELHTENSTLDSLFQRFGRCYRSREYEENSPNIFIYTEKATGIGSIYDKDIVEKGLELLKTFINGKECVKMKEKYKVEMVKILYSKESLEGTAFEKRFTSALNILDTITPYSLGSKDAQNILRNIEGYTVIPEDIYNKIEETLIKDYEELGQELINAYSNDDRQLINKIKSKRKKARREIIKKTVNLPIYKAKQNVIDIQVKGLEDLKILLYKYDIYENKHTKQIFGKGVLISNEIDQFI
>NC_009089.1|WP_003439785.1|3461091_3461793_-|type-I-B-CRISPR-associated-protein-Cas5
MKVLKLDLFQETACYKKPFAMKITETYPLPPYSTINGLIHKILNATEYIPFNISVQGTYESIFNNYQTTYFYKKDSITSMPMNSHMLLNVNLIIHIGGDFDLLEEIYDSLLNYDEHLSLGRKEDLVRINDIRFVEVNKFEVDEDIQLDDYENYKLSECNIRMPIYIPKTSLQDTDIDGISYRLNNYYDNNAVEDKKRVWNKVDSYYVEDGNTISIGDILLDNEGDLLYFNNIN
>NC_009089.1|WP_011861770.1|3461794_3462709_-|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MKRGLTFTVIAQAQSLNYGEGIGNISELKKLSRDDGNMYTFASRQCLRYDIVRLAAELFNWNLQVVDKEKGTIQFKDNISIRESEEMDLFGYMKTNKKDEKDKKGGSLTREATVRLSNAISLEPYRSDMDFLNNKGFADRIGEHPNLANIEQHLSYYTYTVTIDLSKIGKDGEIELDNKEKCRRVVEFLEIIKVLNRNIRGRQENLSPLFVVGGVYEIANPFFLGRIKLKGDKNGFKINKQAIEEVIQGTFLGKDLKEFTYVGMVDGVFINKEEFKGLFEDNFLSVDKFFGQLVKEVKEYYGVN
>NC_009089.1|WP_011861771.1|3462710_3464588_-|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1
MKLRVYRGDWFFNMGIVGFLNIIKKADKQAEIFIMEDYIEFDSLFLENFHEYYFNYFMDEYDVSKRIKKNIDYSINFIKSKPDRIKDGIKKIKDSVKQQNDKIKKFDEEKFNLIKEKLDSMSKIKSYDEFDSLEALVDETIDIFKIKSINDRLTANLYKYVVQDNYFGQVSFFNVAKAKLDLDGLKQVMFNDYLRQIIYFGELEDLLEENDYDKLKNYLNDRLNSIDKDINEKKVSKSSINTIEKIMKEINKNFIKKNKSIEDIKEYMDSLEVCEMCGLYKGILDEYSESNFAPLGVSTNNARNMFWNQAYVPSICDICKLILFCTPAGATYTRKNYLINEENEFYLFVNMDTCINELFERNNSLKVQKSESSDSKDENPFNQLIKSIVEENTLKSEWQLRNILFVEFKASIDSKKCKINYFNIPTYLAKFFTDKYANKKIQSIYDYKLKSNVLDLLLKNRDLKHITNNILRNKVKNDMESNNKSNISGIDCFRVVQLRVLINSYKKGVYKMDSKNLEKNDEKLKIIYYLGCDIHDYFVNKNSKNKIDGVSYKLLNSVKVGNKSDFMDTIIRVFMSAEKQIPAFILDIEIEKDLDFESIGHAFISGLISGKYEGKDKLPNEKEEK
>NC_009089.1|WP_011861772.1|3464593_3465331_-|CRISPR-associated-endoribonuclease-Cas6
MKMKIEFSTGCIPISYNSLFMSIIKEAIRKSNEDYYKNMYYYKEKNNKKTKNFTFSVYIKKYSIEGDNFIIEDKVILNISTPDLELGFHIYNGLMTSKKCLYKDYELTRIRIDLSREKKVTEERVLFNALSPICVKSKEGKFLEITDDRYIEELNYITNEVVKNYRGNGLKRKLEFENVGFKKVVVKESLREFKKITGKEYQYINGYKGKFILKGDIDDLNLIYNLGIGFRRAQGFGDVDILEWR
>NC_009089.1|WP_011861773.1|3465408_3466326_-|WYL-domain-containing-protein
MMILIQSRGKMKCKELSEELEVSERQIKSYKMYLEQAGIFINSTPGIYGGYEIDKCNSISLIKLLDSEVSILDMINSQLEYNNDIYKNEFNNIVEKIKAVLNTGEKSDTYMDYFTVQAQRNCDYESEKNKCNEIIRAYTTKHKFWIEYYSLNSGNSERIVHPYGLFNYKSDTYMVAFCEKRFKFIDFKLCRIKDYKVLEEKYNVDKSFSWDEYSKNSIGIYKGEEINVVIKISHPFSTIIKEKVWVNNQQIIEYDDKSIMFKAKMRGYEEIKSWILSMGAYVEVVEPDRLRNDILSEIEKMKKIY
>NC_009089.1|WP_011861774.1|3466605_3468522_-|ABC-transporter-permease
MNIKQFAINNISRNIKAYLGYLASIVISSSLLFSFIMFTSHPDLDVSQFPDYLKEGLKMSKIIAYLFLFFFVFYSVSVFLKSRYKEFGILYITGISKRQVMKLIFIENMIINIVSSVIGIIIGLIFAKIFLVVMSTFLELSPLKFYIPFNAILSTLIYFMILAVLTSIFTSFIVKENQVLKLLKGTKTPKPEPKTSLMLAILSICLFIIAYYNAITSTDQYTTYLRLVPVTSLTIVATYLFFSQFSVFFMKKLKLNKRFYRKNTNMLWISNLIYKVKDNARIFFLITITSAVAFTAIGTVYSFWKDVERQINLIYPNTIYYSTMTLHNDTKKPDSKEKDKERMMFIENNLKKENVDYTRINGEFKTVFPKKSDFNVRIMKESKYLEITETIGIKPISFEDNECISLLSSSLPGNKNVKENIIVGNRGLKVAKQVEECVMPAYYKNMYVVKDNFYDSIESKFIVDRFTAFEVEDSSKTIEICREFENKFNNESGMQPYLFFSKELMIGTGKLMYSTFIFLAIFIGLIFFVTTSSFLYNKFYMDCQVDKKKYEQLNKLGMTYNEIKKASTIEIGIVFLFPYVVAVIHSIFALTALKNSFDIEVASSAVLVMGSLFLVQIVYFLIVRNNYLKEIRLNLVNF

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Crispr_ID: NC_009089_22

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009089_22

4150228-4150313

Orphan

Consensus_repeat	Method
AAAGTGCTAAAGCACGTCGCCAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009089_22

>merge|NC_009089|22|4150228-4150313|CRISPRCasFinder
AAAGTGCTAAAGCACGTCGCCAACAAACAAACTTCACATGCGTTCAGTTTATTCTGTTGCTAAAAGTGCTAAAGCACGGCGCCAAC

>NC_009089|22|20|4150228-4150313|CRISPRCasFinder
AAAGTGCTAAAGCACGTCGCCAAC	AAACAAACTTCACATGCGTTCAGTTTATTCTGTTGCTA
AAAGTGCTAAAGCACGGCGCCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009089.1\|WP_003435873.1\|4140763_4141597_-\|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase	unknown	unknown	gnl\|CDD\|381175
NC_009089.1\|WP_003427637.1\|4142421_4143315_-\|stage-0-sporulation-family-protein	unknown	unknown	gnl\|CDD\|224688
NC_009089.1\|WP_009892121.1\|4157489_4158458_-\|P1-family-peptidase	unknown	unknown	gnl\|CDD\|239070
NC_009089.1\|WP_003427633.1\|4146633_4146825_-\|DUF378-domain-containing-protein	unknown	unknown	gnl\|CDD\|377214
NC_009089.1\|WP_011861997.1\|4145069_4146479_-\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|224893
NC_009089.1\|WP_003434962.1\|4154821_4155790_-\|tRNA-dihydrouridine-synthase-DusB	unknown	unknown	gnl\|CDD\|129820
NC_009089.1\|WP_003435878.1\|4143311_4144247_-\|DNA-polymerase-III-subunit-delta'	unknown	unknown	gnl\|CDD\|180132
NC_009089.1\|WP_011861999.1\|4155926_4156697_-\|type-III-pantothenate-kinase	unknown	unknown	gnl\|CDD\|237347
NC_009089.1\|WP_009903819.1\|4158450_4159428_-\|biotin--[acetyl-CoA-carboxylase]-ligase	unknown	unknown	gnl\|CDD\|237010
NC_009089.1\|WP_003435875.1\|4141597_4142344_-\|tRNA1(Val)-(adenine(37)-N6)-methyltransferase	unknown	unknown	gnl\|CDD\|226608
NC_009089.1\|WP_016728535.1\|4152186_4152381_-\|hypothetical-protein	unknown	unknown	unknown
NC_009089.1\|WP_011861998.1\|4152689_4154219_-\|lysine--tRNA-ligase	unknown	unknown	gnl\|CDD\|234778
NC_009089.1\|WP_009892124.1\|4159742_4161713_-\|ATP-dependent-metallopeptidase-FtsH/Yme1/Tma-family-protein	unknown	unknown	gnl\|CDD\|273520
NC_009089.1\|WP_009892113.1\|4144249_4144939_-\|thymidylate-kinase	unknown	unknown	gnl\|CDD\|223203
NC_009089.1\|WP_003422204.1\|4154233_4154713_-\|transcription-elongation-factor-GreA	unknown	unknown	gnl\|CDD\|234693
NC_009089.1\|WP_003427657.1\|4137953_4139384_+\|nicotinate-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|236426
NC_009089.1\|WP_003421494.1\|4139420_4139849_+\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224439
NC_009089.1\|WP_011861996.1\|4140036_4140741_-\|HD-domain-containing-protein	unknown	unknown	gnl\|CDD\|131739
NC_009089.1\|WP_003434952.1\|4161746_4163135_-\|tRNA-lysidine(34)-synthetase-TilS	unknown	unknown	gnl\|CDD\|274129
NC_009089.1\|WP_009892118.1\|4156715_4157306_-\|ECF-transporter-S-component	unknown	unknown	gnl\|CDD\|227029

Protein	Function_ID	Function_description	E-value
NC_009089.1\|WP_003435873.1\|4140763_4141597_-\|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase	gnl\|CDD\|381175	cd11648, RsmI, Ribosomal RNA small subunit methyltransferase I (RsmI), also known as rRNA (cytidine-2'-O-)-methyltransferase. RsmI is an S-AdoMet (S-adenosyl-L-methionine or SAM)-dependent methyltransferase responsible for the 2'-O-methylation of cytidine 1402 (C1402) at the P site of bacterial 16S rRNA. Another S-AdoMet-dependent methyltransferase, RsmH (not included in this family), is responsible for N4-methylation at C1402. These methylation reactions may occur at a late step during 30S assembly in the cell. The dimethyl modification is believed to be conserved in bacteria, may play a role in fine-tuning the shape and functions of the P-site to increase the translation fidelity, and has been shown for Staphylococcus aureus, to contribute to virulence in host animals by conferring resistance to oxidative stress.	4.3781e-129
NC_009089.1\|WP_003427637.1\|4142421_4143315_-\|stage-0-sporulation-family-protein	gnl\|CDD\|224688	COG1774, COG1774, Uncharacterized homolog of PSP1 [Function unknown].	2.232e-96
NC_009089.1\|WP_009892121.1\|4157489_4158458_-\|P1-family-peptidase	gnl\|CDD\|239070	cd02252, nylC_like, nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-polymerized 6-aminohexanoate oligomers. Together with other nylon degradation enzymes, such as 6-aminohexanoate cyclic dimer hydrolase (EI) and 6-aminohexanoate dimer hydrolase (EII), EIII plays a role in the detoxification and biological removal of the synthetic by-products of nylon manufacture. EIII shows sequence similarity to L-aminopeptidase D-amidase/D-esterase (DmpA), an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. Like DmpA, EIII undergoes autocatalytic cleavage in front of a nucleophile to form a heterodimer. DmpA shows similarity in catalytic mechanism to N-terminal nucleophile (Ntn) hydrolases, which are enzymes that catalyze the cleavage of amide bonds through the nucleophilic attack of the side chain of an N-terminal serine, threonine, or cysteine.	8.21764e-125
NC_009089.1\|WP_003427633.1\|4146633_4146825_-\|DUF378-domain-containing-protein	gnl\|CDD\|377214	pfam04070, DUF378, Domain of unknown function (DUF378). Predicted transmembrane domain of unknown function. The majority of the family have two predicted transmembrane regions.	4.45287e-17
NC_009089.1\|WP_011861997.1\|4145069_4146479_-\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|224893	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism].	1.74466e-122
NC_009089.1\|WP_003434962.1\|4154821_4155790_-\|tRNA-dihydrouridine-synthase-DusB	gnl\|CDD\|129820	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family. This model represents one branch of COG0042 (Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family). This branch includes NifR3 itself, from Rhodobacter capsulatus. It excludes a broadly distributed but more sparsely populated subfamily that contains sll0926 from Synechocystis PCC6803, HI0634 from Haemophilus influenzae, and BB0225 from Borrelia burgdorferi. It also excludes a shorter and more distant archaeal subfamily.The function of nifR3, a member of this family, is unknown, but it is found in an operon with nitrogen-sensing two component regulators in Rhodobacter capsulatus.Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. [Unknown function, General].	1.31518e-153
NC_009089.1\|WP_003435878.1\|4143311_4144247_-\|DNA-polymerase-III-subunit-delta'	gnl\|CDD\|180132	PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated.	2.18473e-57
NC_009089.1\|WP_009903819.1\|4158450_4159428_-\|biotin--[acetyl-CoA-carboxylase]-ligase	gnl\|CDD\|237010	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA.	6.32769e-75
NC_009089.1\|WP_003435875.1\|4141597_4142344_-\|tRNA1(Val)-(adenine(37)-N6)-methyltransferase	gnl\|CDD\|226608	COG4123, COG4123, Predicted O-methyltransferase [General function prediction only].	1.56804e-97
NC_009089.1\|WP_011861999.1\|4155926_4156697_-\|type-III-pantothenate-kinase	gnl\|CDD\|237347	PRK13318, PRK13318, type III pantothenate kinase.	7.8546e-154
NC_009089.1\|WP_011861998.1\|4152689_4154219_-\|lysine--tRNA-ligase	gnl\|CDD\|234778	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.	0
NC_009089.1\|WP_009892124.1\|4159742_4161713_-\|ATP-dependent-metallopeptidase-FtsH/Yme1/Tma-family-protein	gnl\|CDD\|273520	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides].	0
NC_009089.1\|WP_009892113.1\|4144249_4144939_-\|thymidylate-kinase	gnl\|CDD\|223203	COG0125, Tmk, Thymidylate kinase [Nucleotide transport and metabolism].	3.64761e-36
NC_009089.1\|WP_003422204.1\|4154233_4154713_-\|transcription-elongation-factor-GreA	gnl\|CDD\|234693	PRK00226, greA, transcription elongation factor GreA; Reviewed.	2.99301e-69
NC_009089.1\|WP_003427657.1\|4137953_4139384_+\|nicotinate-phosphoribosyltransferase	gnl\|CDD\|236426	PRK09243, PRK09243, nicotinate phosphoribosyltransferase; Validated.	0
NC_009089.1\|WP_003421494.1\|4139420_4139849_+\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|224439	COG1522, Lrp, Transcriptional regulators [Transcription].	5.08799e-36
NC_009089.1\|WP_011861996.1\|4140036_4140741_-\|HD-domain-containing-protein	gnl\|CDD\|131739	TIGR02692, putative_tRNA_nucleotidyltransferase, tRNA adenylyltransferase. The enzyme tRNA adenylyltransferase, also called tRNA-nucleotidyltransferase and CCA-adding enzyme, can add or repair the required CCA triplet at the 3'-end of tRNA molecules. Genes encoding tRNA include the CCA tail in some but not all bacteria, and this enzyme may be required for viability. Members of this family represent a distinct clade within the larger family pfam01743 (tRNA nucleotidyltransferase/poly(A) polymerase family protein). The example from Streptomyces coelicolor was shown to act as a CCA-adding enzyme and not as a poly(A) polymerase. [Protein synthesis, tRNA and rRNA base modification].	3.25858e-09
NC_009089.1\|WP_003434952.1\|4161746_4163135_-\|tRNA-lysidine(34)-synthetase-TilS	gnl\|CDD\|274129	TIGR02432, tRNAIle-lysidine_synthase, tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer). [Protein synthesis, tRNA and rRNA base modification].	5.91013e-71
NC_009089.1\|WP_009892118.1\|4156715_4157306_-\|ECF-transporter-S-component	gnl\|CDD\|227029	COG4684, COG4684, Predicted membrane protein [Function unknown].	7.53923e-30

>NC_009089.1|WP_003427633.1|4146633_4146825_-|DUF378-domain-containing-protein
MKKVALILAIIGALNWGAIGILGTDLIGSIFGGTYEMVSRIIYFIVGLAGLYLIPSLMSDDRE
>NC_009089.1|WP_011861997.1|4145069_4146479_-|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme
MFIINELNKIVNEEVISFHMPGHKKGQVYKKLGYKDILKNLYKMDTTEILGTDNLHFPEGIIKNSQKKASRVFKSDYTCYLVNGSSCGIQSAIMSVCSPKSKIITNRDCHQSVINGCILGDIDIEYVPCEISEETNVLKGISISNVIDIIDKNLDAKAVLLTYPTYYGMTYDLEYICNYAHSKKMVVIVDEAHGAHLGLSERLPKTALEQGADIVVQSTHKTLPAFTQSSMIHIQGDRVDIDKILNMLRITESSSPSYLLLSSLELAVDIYENKGKELMEELLNNIITFKNKVDSNINIYDTNDKTKIFISSKNMGLTGYELENILRNKYNIQVELSNYYGVLLICTIGNTAEDFSSLETALNNVVKEDFKFEKLENKKYPVVIPKKILTPREAFYKTKKSVKIYDSIGKVCGECIVPYPPGISVISPGEVISKEIIDYLMFCHSKGMIVSGLKDVDLNFIQVIDLEDI
>NC_009089.1|WP_009892113.1|4144249_4144939_-|thymidylate-kinase
MKGKLIIIESGSDASGKATQTEILYERLKKEGYMIKKVEYPNYESPSSALVKMYLKGDFGKNASDVDPYIASTFFTADRYASFKTDWEEFYNEGGIIIADRYTTSNMVHQASKMDICDREEYLNWLADYEFNLFKIPQPDCVIFLDVPIEFSKKLMENRKNKITGEEKKDIHESDIEYLEKSYNNALYIADKYDWKKINCVLDNKLRSIESIHNEIYKIVLDSIKPMER
>NC_009089.1|WP_003435878.1|4143311_4144247_-|DNA-polymerase-III-subunit-delta'
MYFENIIGQDFAKKYLTNSIKKNKLNNAYMFEGMDGIGKKKFADELSKLLLDYENLENSPDYVLIKPDGNSIKIAQIRNLQSDIVIRPHKDYKIYIINNAEKMTVEAQNALLKTLEEPPNYAIIILVTNNKESLLETIKSRCDIIKFSPIPIEDLKRYLINTGIEEERAQLLAIFSRGSIENALNLSQSSEFSMMREDIQQYIQIMLDKNIVEILNIPNNMEKYRGKIIALLDMMINYFRDIILLKENVNKNMLINVDKLVFIQNMSGKISYSQLSKIIDIIEDAKSKIKSNCNFNISIQVMSLNIYEVIK
>NC_009089.1|WP_003427637.1|4142421_4143315_-|stage-0-sporulation-family-protein
MIKIVGIRFKSAGKIYYFDPVDFNIEQDMDVVVETARGLEYGKVVVGPKDMDESELVSPLKPIIRIATEEDKKVYLENKEKAKETFELCQQKIKEHELTMFLIDCEYTFDRNKLIFYFTAEGRIDFRELVKDLAAIFKTRIELRQIGVRDEAKSIGGLGPCGRKLCCSSWLGDFQPVSIKMAKDQSLSLNPTKISGICGRLFCCLKYEHDVYSEAIEKMPVVGALVQSDDGKGKVVEVNPLLEQIKVEFQDKTVKIYTREDIKILREPKKCDGCGGKCKDNDGLDEATLRELKKLED
>NC_009089.1|WP_003435875.1|4141597_4142344_-|tRNA1(Val)-(adenine(37)-N6)-methyltransferase
MQLKDSERIDDLQLKGLKIIQDTNGFCFGIDAVLLANFTKIKKDAKVVDLGTGTGIIPILIAGKSEAKKIIGVEIQEDVYEMATRSIKLNGLEERVEIINEDIKYIDKVLDINGYHVVTSNPPYMHIDGIKNPNDKKAISRHEVRCNLEDVIRAASRLVMPRGKFFMIHRPTRLVDIITLGRKYKLEPKVIQFVHPRPQKAPNLVLVQFVKDGRPELKILDPLYVYGEDGNYTKELKAIYNNKDIGEL
>NC_009089.1|WP_003435873.1|4140763_4141597_-|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
MSGKLYICPTPIGNLEDITYRTLRTLKEVDLIAAEDTRHSIKLLNHFEISKPLTSYHEHNKDSKGDYLINKLIDGENIALISDAGMPGISDPGEEIIKQAIQNNIEIEVLPGATAFVTALVGSGMDTHRFVFEGFLDRDKKVRKAQLEELKEESRTIIFYESPHRLKDTLKDMLKILGNRNISINRELTKKYQEIIRENIETTIKIFEEKEVRGEFVLIVEGFHGEKSKKENYDGLTDREYVLKLIESGMNKKDAIKIVCKDRKLKKDVVYKQVLDL
>NC_009089.1|WP_011861996.1|4140036_4140741_-|HD-domain-containing-protein
MEIGKIIIESLKREDTHKIFTELDNKHELEKIIPKISCMKSVGECKYHVVNCFEHSINALKELEIVLNDKDFFPIHLRKHVSNYLNTYIEEGINKLHVLKLGTFLHDIGKPDSMTLDETGRVHFTNHEKIGAQIIDNMGIKLELSTETYRLISKYVRYHMILLSLYKKNDLSRKELINVFNLVDEDTIGVIMLGYADIVSTVKLLGKSGEVSVLKTYMEYILTNYLYKSNYTHV
>NC_009089.1|WP_003421494.1|4139420_4139849_+|Lrp/AsnC-family-transcriptional-regulator
MDVTDYRIIEILQDDGRISMKDLGKIVGLTSPAVSERVKRLEESGVIEGYKAIVNPDSLGRVIKAFIHISLPSNGYTEFIESAAKDPRIVECHHITGDDCLLLKVIVKDMYELENVIDTIKKIGSTKTSVILSTPIQAKSIL
>NC_009089.1|WP_003427657.1|4137953_4139384_+|nicotinate-phosphoribosyltransferase
MRNLTLLTDLYQLTMLNGYFEKNIHEDIVVFDMFFRKNACDGGYTIVCGIDQVVEYIDNLHFSDEDLEYLKNLNLFSDKFLKFLKEFKFTGDIYAVEEGTIMFPNEPLITVKAPLYQAQLIETALLTIVNFQSLIATKASRVCFAAQGDPVFEFGLRRAQGPDAGIYGARAAVVGGCAGTANVLAGKMFDIPIIGTQAHSWVQKFDNELEAFQAYADVYPDKCLLLVDTYDVLNSGVPNAIKVFKNISEKGYKPMGIRLDSGDLAYLSKEAKKQLDNAGFSDISITASNDLDEYTITSLKAEGATINSWGVGTKLITSFDSPSLGGVYKLAASCEKGVLEPKIKISENPEKINNPGYKKVIRIYNEDNKAEADLIMLHDEVIDESKPLEIFHPTYTWKTKVFTNYKVKELLKPLYIKGRCKYNKKAVLEIKNHVQYELSTIWEQYKRLSKPHIYKVDLSRNLWYLKTQMIDSKKVL
>NC_009089.1|WP_016728535.1|4152186_4152381_-|hypothetical-protein
MFQVINFLCLFCVGFLVLDVMIYFCKDAMDIFEGTTNVNKVKSINVWADRVRANSYSYENKIAK
>NC_009089.1|WP_011861998.1|4152689_4154219_-|lysine--tRNA-ligase
MKNNQQSNEEAQIQEDLSEVLQVRRDKLKKLQESGRDPFKESRYDRTHYSMDIKDNFDSLEGKTTKIAGRIMSKRIQGKAGFIDIQDQEGRIQSYVRLDAIGEEEYSVFSTYDIGDIVGIEGEIFKTKKGEISVKAKSVVLLCKSLQVLPEKYHGLKDQELRYRQRYVDLIVNPEVKNAFLIRTKALKALRAYLDDRGFLEVETPILNTIAGGANARPFITNHNTLHIPMYLRIANELYLKRLIVGGFDKVYEMGRMFRNEGMDLKHNPEYTAIELYQAYADYTDMMEITENVIAHMAEVATGSMIVNYQGTEINFTPPWKRMSMEDCVKEYSGVDFSTINTDEEALEVAREKGIEIKPGMRRGEVINAFFEEFGEDKLIQPTFITHHPVEVSPLSKRNVEDPRRTDRFEAFANKWELANAFSELNDPIDQKGRFIDQLRKRELGDDEAFEMDEDFLKALEVGLPPTGGLGIGIDRVIMLLTNSPSIRDVLLFPTMKLIDNNSNKEEEN
>NC_009089.1|WP_003422204.1|4154233_4154713_-|transcription-elongation-factor-GreA
MEENKEFLLTQEGYDKLEEELENLKVVKRKEVAERIKVAISFGDLSENAEYDEAKKEQAQVEERILKLENMVRKAVIIDESKIDLNVVTIGSIVKVKDLEFDEEVEYTIVGSTEADPYDGKISNESPVGKALLGRAAKEVVEVQVPDGVAKFEILEIRR
>NC_009089.1|WP_003434962.1|4154821_4155790_-|tRNA-dihydrouridine-synthase-DusB
MKIGNLELKNKVFLSPMAGVTDLPFRLICKEQGCGLLYTEMINGKALCYDDENTKKMLKIEEEEHPVAVQIFGSEPEFMGRAAEIMNDYSNEILDINMGCPAPKVVKNGDGSALMKNPKLAEEVLRAVVKNSKKPVTLKIRKGWDDNSVNAVEIAKIAEDCGISALAIHGRTREQFYTGKADWDIIAEIKKNLSIPVIGNGDVFTIEDSINMLDKTGCDAIMIGRGAQGNPWIFKRINHYMNTGEILPEPTLNEKISTAIKHLKLAVEEHGEYVAVREMRKHIAWYLKGLRNSAKLRDEINKIEDYQEVVSKLEYYMEDSLT
>NC_009089.1|WP_011861999.1|4155926_4156697_-|type-III-pantothenate-kinase
MLLVFDVGNTNMVLGIYKGDKLVNYWRIKTDREKTSDEYGILISNLFDYDNVNISDIDDVIISSVVPNVMHSLENFCIKYCKKQPLIVGPGIKTGLNIKYDNPKQVGADRIVNAVAGIEKYGAPSILVDFGTATTFCAISEKGEYLGGTIAPGIKISSEALFQSASKLPRVELAKPGMTICKSTVSAMQSGIIYGYVGLVDKIISIMKKELNCDDVKVIATGGLAKLIASETKSIDYVDGFLTLEGLRIIYEKNQE
>NC_009089.1|WP_009892118.1|4156715_4157306_-|ECF-transporter-S-component
MMNTSASVRKVNVRKMTIIGVLSAISIMLSMTPLGFIPVGPTKATIMHIPVIIGAIMEGPIVGAAIGFIFGISSLLNAITNPTVTSFVFINPLVSILPRVMIGVLAYYVYQLIIKATNKVYISGLITGAIGSLLNTAGVLGMIYVLYADKYLHAMGKSGSAGKVIMALAAANGVPEAIVGALVVAAVATVLKKSKK
>NC_009089.1|WP_009892121.1|4157489_4158458_-|P1-family-peptidase
MYNNILDIEGLKVGQVEDRNGLTGCTVVICEEGATCGVDVRGSAPGTRETDLLDPVNMVQKVHAVVLAGGSAYGLESTCGVSRYLEEKGIGFDVGVGKVPIVVGAVLFDLGVGSFKCRPDLKMGYRACEVANTDILNQGNYGAGCGATVGKIRGQEYAMKGGIGSYSIKLDNGLIVSALIAVNALGDVYENGKVIAGALNDKKTETIDTYKLMKQGESKGGFSVDNTTIGIIATNAKLTKAGCKKISQMGHDGYAKSIFPIHTPHDGDTIFTISTGEIEADITLVGSLAVEVVEKSIINAVKKADSVENIMAYKDIVKKREI
>NC_009089.1|WP_009903819.1|4158450_4159428_-|biotin--[acetyl-CoA-carboxylase]-ligase
MRDKIIEIILNNKSEFISGEELSKQLGVSRAAIWKHMKALKEEGYNIESVNKKGYRLAENPTDLLSPQNIYYKLDTEFIGKNIEHLDTIDSTNEHAKRIAINSVDGTVILSEHQDMGKGRLGRRWDSKPHEGIWMSIILKPDMEPFKAPFITLIAGASVTKALNNLGANTLIKWPNDVILNGKKICGILTELSAEIERTNYVVLGIGINVKIMDFEQEIADKATSLYKEGYMLSRVDIVRNVLTEFEKLYLDYTVNNSKEKTLKICRDYSAIIDKNIYVLKGDNRELVKCLDINEEGNLLVQRSDGSIKEIISGEVSIRGEKGYV
>NC_009089.1|WP_009892124.1|4159742_4161713_-|ATP-dependent-metallopeptidase-FtsH/Yme1/Tma-family-protein
MNKLLKGAGFYLLVFIIIVGIVQFSGKPTEKIKDLKFSEVYRELTDENISRLYFVNQTSVEGTIKDTNTKFKSYVPTEVMGNKLADEVLDQAKAGKLTFGGEAKPSTPWFVEMLPTLLLIFFMVIIWFVFMNQSQGGGGKVMSFGKSKAKVHKDDEKTRVTFKDVAGLDEEKEDLQEVVDFLKNPKKYIELGARIPKGMLMVGPPGTGKTYLSRAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKSAPAIIFIDEIDAVGRKRGAGLGGGHDEREQTLNQLLVEMDGFGVNQGIIIMAATNRPDILDPALLRPGRFDRQVVVGTPDVKGREAIFKVHSRNKPLSDDVKMDVLARRTPGFTPADIENLMNEAAILTARKREKKIKMETIEEAITKVIAGVAKKSKVISEKERRLTAYHEGGHAVCAHVLEEVSPVHQVTIVPRGRAGGFTMQLPVEDKFYATKNEMKENIVVLLGGRVAEELVLKDVSTGASNDLERVTATARSMVTKYGMSSKLGPMSFDSDDEVFLGNSFSSKRNYSEEVAFEIDQETKRIVDGAYDKTRSILQENMDRLEYVAQALLIYETLDAEQFVKAFNKELPLNEIENAVTEENSSKEVEEQLTIKLEKDEEERNNVIDINKNLEDKSDKDK
>NC_009089.1|WP_003434952.1|4161746_4163135_-|tRNA-lysidine(34)-synthetase-TilS
MIFDKVLSTINKHNLIQKGDKIVLGLSGGPDSVCLLHVLNRLKKDFNIEIYAAHLNHQIRGIEAQKDALYVSKLCEDMGIIFFVKSINVPKYCENEGLSLEEGARKLRYEMFYEIKDKIKANKIAIGHNLNDQAETVMMRIMRGTGLKGLKGIDYIRDNCIIRPILDVERNEIEEYCEAYNLNPRIDKTNLENIYTRNKIRLDLLPYMKDNFNSNVIESIVRMSNSLKSDNDYIEKEAEAKFREVSNIKEKGFVEINLDDFVCLHDAIKVRVLRNSIKHILGDTNFVDQRHIEDIMSLEDNSKVNKMLTLPRNIFVYRKKDSIILTNEEIVNEEIEFYYNVPSNGFIKIKELKQIIETQVMSIDRYKSMKLDNSSKGFDFNKVKGGIVIRSRRQGDKIKLAMGSKKVKDLFIDLKIPREERCKIPIITDSEGIICVGDYKISENYKIDENTKEVLKINFNKL

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NC_009089.1	12556-12589	0	1.0
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NC_009089.1	125896-125929	0	1.0
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NC_009089.1	132843-132876	0	1.0
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NC_009089.1	3152413-3152446	0	1.0
NC_009089_5	5.1\|1210901\|35\|NC_009089\|CRISPRCasFinder	1210901-1210935	35	NC_009089.1	125958-125992	0	1.0
NC_009089_5	5.1\|1210901\|35\|NC_009089\|CRISPRCasFinder	1210901-1210935	35	NC_009089.1	132905-132939	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	NC_009089.1	1103665-1103700	0	1.0
NC_009089_22	22.1\|4150252\|38\|NC_009089\|CRISPRCasFinder	4150252-4150289	38	NC_009089.1	3152421-3152458	0	1.0
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NC_009089.1	1210839-1210872	1	0.971
NC_009089_5	5.1\|1210901\|35\|NC_009089\|CRISPRCasFinder	1210901-1210935	35	NC_009089.1	12618-12652	1	0.971

1. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to position: 12556-12589, mismatch: 0, identity: 1.0

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacgcatgtgaagtttgtttgttggcgc	Protospacer
**********************************

2. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to position: 125896-125929, mismatch: 0, identity: 1.0

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacgcatgtgaagtttgtttgttggcgc	Protospacer
**********************************

3. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to position: 132843-132876, mismatch: 0, identity: 1.0

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacgcatgtgaagtttgtttgttggcgc	Protospacer
**********************************

4. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to position: 3152413-3152446, mismatch: 0, identity: 1.0

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacgcatgtgaagtttgtttgttggcgc	Protospacer
**********************************

5. spacer 5.1|1210901|35|NC_009089|CRISPRCasFinder matches to position: 125958-125992, mismatch: 0, identity: 1.0

aatctgagtgaatacgaaggttgttcgttgacgtg	CRISPR spacer
aatctgagtgaatacgaaggttgttcgttgacgtg	Protospacer
***********************************

6. spacer 5.1|1210901|35|NC_009089|CRISPRCasFinder matches to position: 132905-132939, mismatch: 0, identity: 1.0

aatctgagtgaatacgaaggttgttcgttgacgtg	CRISPR spacer
aatctgagtgaatacgaaggttgttcgttgacgtg	Protospacer
***********************************

7. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to position: 1103665-1103700, mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

8. spacer 22.1|4150252|38|NC_009089|CRISPRCasFinder matches to position: 3152421-3152458, mismatch: 0, identity: 1.0

aaacaaacttcacatgcgttcagtttattctgttgcta	CRISPR spacer
aaacaaacttcacatgcgttcagtttattctgttgcta	Protospacer
**************************************

9. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to position: 1210839-1210872, mismatch: 1, identity: 0.971

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacgcatgtaaagtttgtttgttggcgc	Protospacer
***************.******************

10. spacer 5.1|1210901|35|NC_009089|CRISPRCasFinder matches to position: 12618-12652, mismatch: 1, identity: 0.971

aatctgagtgaatacgaaggttgttcgttgacgtg	CRISPR spacer
aatcttagtgaatacgaaggttgttcgttgacgtg	Protospacer
***** *****************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_009089_1	1.1\|141438\|29\|NC_009089\|CRISPRCasFinder	141438-141466	29	NZ_CP033215	Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence	5105-5133	0	1.0
NC_009089_3	3.2\|1125119\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1125119-1125156	38	NZ_CP020426	Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence	3550-3587	0	1.0
NC_009089_3	3.2\|1125119\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1125119-1125156	38	CP011970	Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence	118413-118450	0	1.0
NC_009089_3	3.2\|1125119\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1125119-1125156	38	LN681537	Clostridium phage phiCD211, complete genome	127275-127312	0	1.0
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	KU057941	Clostridium phage CDSH1, complete genome	30535-30570	0	1.0
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	LN881738	Escherichia phage slur17, complete genome	31486-31521	0	1.0
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	HM568888	Clostridium phage phiCD38-2, complete genome	30027-30062	0	1.0
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	NC_028958	Clostridium phage phiCD146, complete genome	29788-29823	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	AY855346	Clostridium difficile bacteriophage phi CD119, complete genome	42830-42865	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	NC_007917	Clostridium phage phi CD119, complete genome	42830-42865	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	NC_028996	Clostridium phage phiCDHM19, complete genome	45842-45877	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	LN681542	Clostridium phage phiMMP03, complete genome	44801-44836	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	HG531805	Clostridium phage CDMH1 complete genome	46164-46199	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	JX145341	Clostridium phage phiMMP02, complete genome	43079-43114	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	NC_048642	Clostridium phage CDKM9, complete genome	45167-45202	0	1.0
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	KX228400	Clostridium phage CDKM15, complete genome	45323-45358	0	1.0
NC_009089_8	8.4\|1756504\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756504-1756540	37	HM568888	Clostridium phage phiCD38-2, complete genome	8824-8860	0	1.0
NC_009089_9	9.1\|1935511\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935511-1935548	38	LN681539	Clostridium phage phiCD505, complete genome	3276-3313	0	1.0
NC_009089_9	9.1\|1935511\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935511-1935548	38	JX145341	Clostridium phage phiMMP02, complete genome	3275-3312	0	1.0
NC_009089_9	9.1\|1935511\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935511-1935548	38	NC_011398	Clostridium phage phiCD27, complete genome	3267-3304	0	1.0
NC_009089_9	9.1\|1935511\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935511-1935548	38	NC_048642	Clostridium phage CDKM9, complete genome	3214-3251	0	1.0
NC_009089_9	9.1\|1935511\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935511-1935548	38	KX228400	Clostridium phage CDKM15, complete genome	3214-3251	0	1.0
NC_009089_9	9.2\|1935578\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935578-1935614	37	GU949551	Clostridium phage phiCD6356, complete genome	17655-17691	0	1.0
NC_009089_9	9.4\|1935710\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935710-1935745	36	KU057941	Clostridium phage CDSH1, complete genome	31710-31745	0	1.0
NC_009089_9	9.4\|1935710\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935710-1935745	36	HM568888	Clostridium phage phiCD38-2, complete genome	31202-31237	0	1.0
NC_009089_9	9.4\|1935710\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935710-1935745	36	NC_028958	Clostridium phage phiCD146, complete genome	30715-30750	0	1.0
NC_009089_9	9.4\|1935710\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935710-1935745	36	LN881738	Escherichia phage slur17, complete genome	30311-30346	0	1.0
NC_009089_9	9.6\|1935841\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935841-1935876	36	FN668942	Clostridium difficile BI1 plasmid pCDBI1, complete sequence	3429-3464	0	1.0
NC_009089_9	9.15\|1936430\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936430-1936466	37	NZ_MF547664	Clostridioides difficile strain LIBA-6289 plasmid LIBA6289, complete sequence	33648-33684	0	1.0
NC_009089_11	11.13\|2663737\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663737-2663772	36	NC_011398	Clostridium phage phiCD27, complete genome	15745-15780	0	1.0
NC_009089_11	11.13\|2663737\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663737-2663772	36	KX228400	Clostridium phage CDKM15, complete genome	15888-15923	0	1.0
NC_009089_11	11.14\|2663802\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663802-2663838	37	LN681539	Clostridium phage phiCD505, complete genome	5459-5495	0	1.0
NC_009089_11	11.14\|2663802\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663802-2663838	37	JX145341	Clostridium phage phiMMP02, complete genome	5458-5494	0	1.0
NC_009089_11	11.14\|2663802\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663802-2663838	37	NC_011398	Clostridium phage phiCD27, complete genome	5450-5486	0	1.0
NC_009089_11	11.14\|2663802\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663802-2663838	37	NC_048642	Clostridium phage CDKM9, complete genome	5397-5433	0	1.0
NC_009089_11	11.14\|2663802\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663802-2663838	37	KX228400	Clostridium phage CDKM15, complete genome	5397-5433	0	1.0
NC_009089_20	20.5\|3397485\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3397485-3397522	38	NZ_CP020426	Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence	3550-3587	0	1.0
NC_009089_20	20.5\|3397485\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3397485-3397522	38	CP011970	Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence	118413-118450	0	1.0
NC_009089_20	20.5\|3397485\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3397485-3397522	38	LN681537	Clostridium phage phiCD211, complete genome	127275-127312	0	1.0
NC_009089_21	21.8\|3455969\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455969-3456005	37	NZ_CP020426	Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence	1094-1130	0	1.0
NC_009089_21	21.8\|3455969\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455969-3456005	37	CP011970	Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence	120870-120906	0	1.0
NC_009089_21	21.8\|3455969\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455969-3456005	37	LN681537	Clostridium phage phiCD211, complete genome	129732-129768	0	1.0
NC_009089_21	21.9\|3456035\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456035-3456070	36	NZ_CP020426	Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence	3077-3112	0	1.0
NC_009089_21	21.9\|3456035\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456035-3456070	36	CP011970	Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence	118888-118923	0	1.0
NC_009089_21	21.9\|3456035\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456035-3456070	36	LN681537	Clostridium phage phiCD211, complete genome	127750-127785	0	1.0
NC_009089_21	21.18\|3456627\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456627-3456663	37	GU949551	Clostridium phage phiCD6356, complete genome	13484-13520	0	1.0
NC_009089_21	21.19\|3456693\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456693-3456729	37	LN681539	Clostridium phage phiCD505, complete genome	5442-5478	0	1.0
NC_009089_21	21.19\|3456693\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456693-3456729	37	JX145341	Clostridium phage phiMMP02, complete genome	5441-5477	0	1.0
NC_009089_21	21.19\|3456693\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456693-3456729	37	NC_011398	Clostridium phage phiCD27, complete genome	5433-5469	0	1.0
NC_009089_21	21.19\|3456693\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456693-3456729	37	NC_048642	Clostridium phage CDKM9, complete genome	5380-5416	0	1.0
NC_009089_21	21.19\|3456693\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3456693-3456729	37	KX228400	Clostridium phage CDKM15, complete genome	5380-5416	0	1.0
NC_009089_2	2.1\|143453\|34\|NC_009089\|CRISPRCasFinder	143453-143486	34	NZ_CP033215	Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence	3086-3119	1	0.971
NC_009089_4	4.3\|1125755\|37\|NC_009089\|CRISPRCasFinder	1125755-1125791	37	LN681542	Clostridium phage phiMMP03, complete genome	14321-14357	1	0.973
NC_009089_4	4.3\|1125755\|37\|NC_009089\|CRISPRCasFinder	1125755-1125791	37	HG531805	Clostridium phage CDMH1 complete genome	15461-15497	1	0.973
NC_009089_4	4.3\|1125755\|37\|NC_009089\|CRISPRCasFinder	1125755-1125791	37	NC_009231	Clostridium phage phiC2, complete genome	14352-14388	1	0.973
NC_009089_4	4.3\|1125755\|37\|NC_009089\|CRISPRCasFinder	1125755-1125791	37	LN681541	Clostridium phage phiMMP01, complete genome	14321-14357	1	0.973
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	NC_048665	Clostridium phage phiCDHM14, complete genome	23384-23419	1	0.972
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	HG796225	Clostridium phage phiCDHM13 complete genome	22885-22920	1	0.972
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	LN681538	Clostridium phage phiCD481-1, complete genome	22624-22659	1	0.972
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	HG798901	Clostridium phage phiCDHM11 complete genome	22884-22919	1	0.972
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	MK473382	Clostridium phage JD032, complete genome	10295-10330	1	0.972
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	NC_028838	Clostridium phage phiCD506, complete genome	23957-23992	1	0.972
NC_009089_8	8.4\|1756504\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756504-1756540	37	NC_028958	Clostridium phage phiCD146, complete genome	8836-8872	1	0.973
NC_009089_8	8.8\|1756766\|39\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756766-1756804	39	LN681539	Clostridium phage phiCD505, complete genome	12854-12892	1	0.974
NC_009089_8	8.8\|1756766\|39\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756766-1756804	39	NC_048642	Clostridium phage CDKM9, complete genome	12792-12830	1	0.974
NC_009089_8	8.8\|1756766\|39\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756766-1756804	39	KX228400	Clostridium phage CDKM15, complete genome	12985-13023	1	0.974
NC_009089_9	9.4\|1935710\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935710-1935745	36	NC_028905	Clostridium phage phiCD111, complete genome	31503-31538	1	0.972
NC_009089_9	9.6\|1935841\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935841-1935876	36	KX905163	Clostridioides phage phiSemix9P1, complete genome	6526-6561	1	0.972
NC_009089_19	19.1\|3396850\|37\|NC_009089\|CRISPRCasFinder	3396850-3396886	37	LN681542	Clostridium phage phiMMP03, complete genome	14321-14357	1	0.973
NC_009089_19	19.1\|3396850\|37\|NC_009089\|CRISPRCasFinder	3396850-3396886	37	HG531805	Clostridium phage CDMH1 complete genome	15461-15497	1	0.973
NC_009089_19	19.1\|3396850\|37\|NC_009089\|CRISPRCasFinder	3396850-3396886	37	NC_009231	Clostridium phage phiC2, complete genome	14352-14388	1	0.973
NC_009089_19	19.1\|3396850\|37\|NC_009089\|CRISPRCasFinder	3396850-3396886	37	LN681541	Clostridium phage phiMMP01, complete genome	14321-14357	1	0.973
NC_009089_21	21.5\|3455772\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455772-3455807	36	NC_028996	Clostridium phage phiCDHM19, complete genome	43914-43949	1	0.972
NC_009089_21	21.5\|3455772\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455772-3455807	36	LN681541	Clostridium phage phiMMP01, complete genome	39332-39367	1	0.972
NC_009089_21	21.5\|3455772\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455772-3455807	36	NC_011398	Clostridium phage phiCD27, complete genome	41962-41997	1	0.972
NC_009089_21	21.5\|3455772\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455772-3455807	36	NC_048642	Clostridium phage CDKM9, complete genome	43238-43273	1	0.972
NC_009089_21	21.7\|3455903\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455903-3455939	37	MF547662	Clostridioides phage LIBA6276, complete genome	130603-130639	1	0.973
NC_009089_21	21.8\|3455969\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455969-3456005	37	MF547662	Clostridioides phage LIBA6276, complete genome	122145-122181	1	0.973
NC_009089_21	21.8\|3455969\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	3455969-3456005	37	MF547663	Clostridioides phage LIBA2945, complete genome	120408-120444	1	0.973
NC_009089_4	4.2\|1125689\|37\|NC_009089\|CRISPRCasFinder	1125689-1125725	37	JX145341	Clostridium phage phiMMP02, complete genome	10860-10896	2	0.946
NC_009089_4	4.2\|1125689\|37\|NC_009089\|CRISPRCasFinder	1125689-1125725	37	NC_011398	Clostridium phage phiCD27, complete genome	10852-10888	2	0.946
NC_009089_6	6.13\|1435575\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435575-1435610	36	NC_028996	Clostridium phage phiCDHM19, complete genome	34840-34875	2	0.944
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	LN681539	Clostridium phage phiCD505, complete genome	43012-43047	2	0.944
NC_009089_8	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	NC_009231	Clostridium phage phiC2, complete genome	48338-48373	2	0.944
NC_009089_8	8.7\|1756700\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756700-1756736	37	MF547662	Clostridioides phage LIBA6276, complete genome	123178-123214	2	0.946
NC_009089_8	8.7\|1756700\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756700-1756736	37	MF547663	Clostridioides phage LIBA2945, complete genome	121441-121477	2	0.946
NC_009089_9	9.3\|1935644\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935644-1935680	37	MK473382	Clostridium phage JD032, complete genome	7100-7136	2	0.946
NC_009089_9	9.11\|1936169\|35\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936169-1936203	35	LN881738	Escherichia phage slur17, complete genome	23273-23307	2	0.943
NC_009089_9	9.11\|1936169\|35\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936169-1936203	35	KU057941	Clostridium phage CDSH1, complete genome	38749-38783	2	0.943
NC_009089_9	9.11\|1936169\|35\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936169-1936203	35	HM568888	Clostridium phage phiCD38-2, complete genome	38247-38281	2	0.943
NC_009089_9	9.11\|1936169\|35\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936169-1936203	35	NC_028958	Clostridium phage phiCD146, complete genome	38400-38434	2	0.943
NC_009089_10	10.1\|2298639\|36\|NC_009089\|PILER-CR	2298639-2298674	36	KU057941	Clostridium phage CDSH1, complete genome	4452-4487	2	0.944
NC_009089_10	10.1\|2298639\|36\|NC_009089\|PILER-CR	2298639-2298674	36	NC_028958	Clostridium phage phiCD146, complete genome	4485-4520	2	0.944
NC_009089_10	10.1\|2298639\|36\|NC_009089\|PILER-CR	2298639-2298674	36	LN680008	Clostridium phage phiCDHS1 gp04 gene for putative capsid protein	1022-1057	2	0.944
NC_009089_10	10.1\|2298639\|36\|NC_009089\|PILER-CR	2298639-2298674	36	LN881738	Escherichia phage slur17, complete genome	15950-15985	2	0.944
NC_009089_11	11.1\|2662945\|36\|NC_009089\|CRISPRCasFinder,CRT	2662945-2662980	36	NZ_MG973074	Clostridioides difficile strain HSJD-312 plasmid pHSJD-312, complete sequence	22132-22167	2	0.944
NC_009089_19	19.2\|3396916\|37\|NC_009089\|CRISPRCasFinder	3396916-3396952	37	JX145341	Clostridium phage phiMMP02, complete genome	10860-10896	2	0.946
NC_009089_19	19.2\|3396916\|37\|NC_009089\|CRISPRCasFinder	3396916-3396952	37	NC_011398	Clostridium phage phiCD27, complete genome	10852-10888	2	0.946
NC_009089_19	19.4\|3396858\|38\|NC_009089\|PILER-CR	3396858-3396895	38	LN681542	Clostridium phage phiMMP03, complete genome	14321-14358	2	0.947
NC_009089_19	19.4\|3396858\|38\|NC_009089\|PILER-CR	3396858-3396895	38	HG531805	Clostridium phage CDMH1 complete genome	15461-15498	2	0.947
NC_009089_19	19.4\|3396858\|38\|NC_009089\|PILER-CR	3396858-3396895	38	NC_009231	Clostridium phage phiC2, complete genome	14352-14389	2	0.947
NC_009089_19	19.4\|3396858\|38\|NC_009089\|PILER-CR	3396858-3396895	38	LN681541	Clostridium phage phiMMP01, complete genome	14321-14358	2	0.947
NC_009089_22	22.1\|4150252\|38\|NC_009089\|CRISPRCasFinder	4150252-4150289	38	NZ_CP033215	Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence	3094-3131	2	0.947
NC_009089_4	4.5\|1125691\|38\|NC_009089\|PILER-CR	1125691-1125728	38	JX145341	Clostridium phage phiMMP02, complete genome	10859-10896	3	0.921
NC_009089_4	4.5\|1125691\|38\|NC_009089\|PILER-CR	1125691-1125728	38	NC_011398	Clostridium phage phiCD27, complete genome	10851-10888	3	0.921
NC_009089_6	6.8\|1435248\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435248-1435283	36	NC_028905	Clostridium phage phiCD111, complete genome	30330-30365	3	0.917
NC_009089_6	6.13\|1435575\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435575-1435610	36	AY855346	Clostridium difficile bacteriophage phi CD119, complete genome	31152-31187	3	0.917
NC_009089_6	6.13\|1435575\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1435575-1435610	36	NC_007917	Clostridium phage phi CD119, complete genome	31152-31187	3	0.917
NC_009089_8	8.8\|1756766\|39\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756766-1756804	39	NC_011398	Clostridium phage phiCD27, complete genome	12842-12880	3	0.923
NC_009089_19	19.5\|3396924\|38\|NC_009089\|PILER-CR	3396924-3396961	38	JX145341	Clostridium phage phiMMP02, complete genome	10860-10897	3	0.921
NC_009089_19	19.5\|3396924\|38\|NC_009089\|PILER-CR	3396924-3396961	38	NC_011398	Clostridium phage phiCD27, complete genome	10852-10889	3	0.921
NC_009089_18	18.3\|3304027\|25\|NC_009089\|CRISPRCasFinder	3304027-3304051	25	MN694568	Marine virus AFVG_250M879, complete genome	12134-12158	4	0.84
NC_009089_18	18.3\|3304027\|25\|NC_009089\|CRISPRCasFinder	3304027-3304051	25	HQ634174	Cyanophage MED4-213, complete genome	98055-98079	4	0.84
NC_009089_18	18.3\|3304027\|25\|NC_009089\|CRISPRCasFinder	3304027-3304051	25	GU071101	Prochlorococcus phage P-HM1, complete genome	15695-15719	4	0.84
NC_009089_9	9.3\|1935644\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1935644-1935680	37	NC_028838	Clostridium phage phiCD506, complete genome	27152-27188	5	0.865
NC_009089_1	1.1\|141438\|29\|NC_009089\|CRISPRCasFinder	141438-141466	29	KY971610	Pseudomonas phage PspYZU05, complete genome	134239-134267	6	0.793
NC_009089_7	7.6\|1645556\|38\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645556-1645593	38	NZ_CP016840	Brochothrix thermosphacta strain TMW 2.1564 plasmid pL21564-1, complete sequence	16051-16088	6	0.842
NC_009089_10	10.2\|2298711\|30\|NC_009089\|PILER-CR	2298711-2298740	30	MN694267	Marine virus AFVG_250M705, complete genome	29033-29062	6	0.8
NC_009089_11	11.11\|2663603\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663603-2663640	38	AY855346	Clostridium difficile bacteriophage phi CD119, complete genome	9402-9439	6	0.842
NC_009089_11	11.11\|2663603\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663603-2663640	38	NC_007917	Clostridium phage phi CD119, complete genome	9402-9439	6	0.842
NC_009089_11	11.11\|2663603\|38\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663603-2663640	38	NC_028996	Clostridium phage phiCDHM19, complete genome	9648-9685	6	0.842
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	MG869618	Polaromonas sp. E5S plasmid pE5SP1, complete sequence	53570-53600	7	0.774
NC_009089_9	9.13\|1936299\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936299-1936334	36	NZ_LR134399	Listeria monocytogenes strain NCTC7974 plasmid 2, complete sequence	251200-251235	8	0.778
NC_009089_9	9.15\|1936430\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936430-1936466	37	NZ_CP017256	Clostridium taeniosporum strain 1/k plasmid pCt3, complete sequence	5594-5630	8	0.784
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	LR606148	Rhizobium sp. Q54 genome assembly, plasmid: 5	444883-444913	8	0.742
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	NZ_KY940428	UNVERIFIED: Bacillus sp. (in: Bacteria) strain PUMK-07 plasmid pMK-07, complete sequence	17267-17303	9	0.757
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	NZ_CP047087	Bacillus paranthracis strain BC307 plasmid pCE2, complete sequence	27140-27176	9	0.757
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	NZ_CP041978	Bacillus pacificus strain NCCP 15909 plasmid unnamed1, complete sequence	209260-209296	9	0.757
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	CP041980	Bacillus paranthracis strain NCCP 15910 plasmid unnamed, complete sequence	192210-192246	9	0.757
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	CP041752	Bacillus paranthracis strain NCCP 14796 plasmid unnamed2, complete sequence	23649-23685	9	0.757
NC_009089_7	7.3\|1645355\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1645355-1645391	37	NZ_CP040343	Bacillus cereus strain DLOU-Weihai plasmid unnamed1, complete sequence	251192-251228	9	0.757
NC_009089_9	9.15\|1936430\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936430-1936466	37	NZ_CP047434	Spiroplasma citri strain BLH-13 plasmid pSciBLH13-6	24856-24892	9	0.757
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	NZ_MK748464	Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-PNG-07060 clone Ren-PNG-07060, complete sequence	24257-24287	9	0.71
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	NZ_MK748465	Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-PNG-07113 clone Ren-PNG-07113, complete sequence	24334-24364	9	0.71
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	NZ_MK748462	Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-Bali-16-03 clone Ren-Bali-16-03, complete sequence	24337-24367	9	0.71
NC_009089_18	18.1\|3303892\|31\|NC_009089\|CRISPRCasFinder	3303892-3303922	31	NZ_MK748463	Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-Pal-02 clone Ren-Pal-02, complete sequence	24326-24356	9	0.71
NC_009089_9	9.15\|1936430\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936430-1936466	37	NZ_CP035115	Lactobacillus plantarum strain SRCM103295 plasmid unnamed2	17114-17150	10	0.73
NC_009089_9	9.15\|1936430\|37\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1936430-1936466	37	NZ_CP035567	Lactobacillus plantarum strain SRCM103300 plasmid unnamed1	50389-50425	10	0.73
NC_009089_11	11.1\|2662945\|36\|NC_009089\|CRISPRCasFinder,CRT	2662945-2662980	36	NZ_CP045274	Bacillus megaterium strain FDU301 plasmid pFDU301B, complete sequence	47033-47068	10	0.722
NC_009089_11	11.13\|2663737\|36\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663737-2663772	36	AP014113	Uncultured Mediterranean phage uvMED isolate uvMED-GF-C35-MedDCM-OCT-S46-C200, * SEQUENCING IN PROGRESS *	269-304	10	0.722
NC_009089_14	14.1\|3139503\|34\|NC_009089\|CRISPRCasFinder	3139503-3139536	34	MN856057	Bacteriophage sp. isolate 161, complete genome	9470-9503	10	0.706
NC_009089_14	14.1\|3139503\|34\|NC_009089\|CRISPRCasFinder	3139503-3139536	34	MN855979	Bacteriophage sp. isolate 144, complete genome	12547-12580	10	0.706
NC_009089_3	3.5\|1125318\|37\|NC_009089\|CRISPRCasFinder,CRT	1125318-1125354	37	LC557520	Staphylococcus phage vB_SsapH-Golestan101-M DNA, complete genome	15673-15709	11	0.703
NC_009089_11	11.10\|2663537\|37\|NC_009089\|CRISPRCasFinder,CRT,PILER-CR	2663537-2663573	37	NC_018878	Bacillus thuringiensis Bt407 plasmid BTB_502p, complete sequence	269698-269734	11	0.703
NC_009089_14	14.1\|3139503\|34\|NC_009089\|CRISPRCasFinder	3139503-3139536	34	NZ_CP022366	Azospirillum sp. TSH58 plasmid TSH58_p04, complete sequence	547093-547126	11	0.676
NC_009089_20	20.2\|3397287\|37\|NC_009089\|CRISPRCasFinder,CRT	3397287-3397323	37	LC557520	Staphylococcus phage vB_SsapH-Golestan101-M DNA, complete genome	15673-15709	11	0.703

1. spacer 1.1|141438|29|NC_009089|CRISPRCasFinder matches to NZ_CP033215 (Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tgtaataagttaaagcaatatgaatcaac	CRISPR spacer
tgtaataagttaaagcaatatgaatcaac	Protospacer
*****************************

2. spacer 3.2|1125119|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP020426 (Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

aactcttcaatatctcctaatcgttcaatataattctc	CRISPR spacer
aactcttcaatatctcctaatcgttcaatataattctc	Protospacer
**************************************

3. spacer 3.2|1125119|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to CP011970 (Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence) position: , mismatch: 0, identity: 1.0

aactcttcaatatctcctaatcgttcaatataattctc	CRISPR spacer
aactcttcaatatctcctaatcgttcaatataattctc	Protospacer
**************************************

4. spacer 3.2|1125119|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681537 (Clostridium phage phiCD211, complete genome) position: , mismatch: 0, identity: 1.0

aactcttcaatatctcctaatcgttcaatataattctc	CRISPR spacer
aactcttcaatatctcctaatcgttcaatataattctc	Protospacer
**************************************

5. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KU057941 (Clostridium phage CDSH1, complete genome) position: , mismatch: 0, identity: 1.0

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggtttaagaaaataagttatttttcaaa	Protospacer
************************************

6. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN881738 (Escherichia phage slur17, complete genome) position: , mismatch: 0, identity: 1.0

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggtttaagaaaataagttatttttcaaa	Protospacer
************************************

7. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HM568888 (Clostridium phage phiCD38-2, complete genome) position: , mismatch: 0, identity: 1.0

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggtttaagaaaataagttatttttcaaa	Protospacer
************************************

8. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028958 (Clostridium phage phiCD146, complete genome) position: , mismatch: 0, identity: 1.0

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggtttaagaaaataagttatttttcaaa	Protospacer
************************************

9. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to AY855346 (Clostridium difficile bacteriophage phi CD119, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

10. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_007917 (Clostridium phage phi CD119, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

11. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028996 (Clostridium phage phiCDHM19, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

12. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681542 (Clostridium phage phiMMP03, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

13. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HG531805 (Clostridium phage CDMH1 complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

14. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

15. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

16. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 0, identity: 1.0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
************************************

17. spacer 8.4|1756504|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HM568888 (Clostridium phage phiCD38-2, complete genome) position: , mismatch: 0, identity: 1.0

gctgaaagtttaaaagttttaactataaattcagttg	CRISPR spacer
gctgaaagtttaaaagttttaactataaattcagttg	Protospacer
*************************************

18. spacer 9.1|1935511|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681539 (Clostridium phage phiCD505, complete genome) position: , mismatch: 0, identity: 1.0

ctagaattagaactcattattaaaaccattcttgcaag	CRISPR spacer
ctagaattagaactcattattaaaaccattcttgcaag	Protospacer
**************************************

19. spacer 9.1|1935511|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 0, identity: 1.0

ctagaattagaactcattattaaaaccattcttgcaag	CRISPR spacer
ctagaattagaactcattattaaaaccattcttgcaag	Protospacer
**************************************

20. spacer 9.1|1935511|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 0, identity: 1.0

ctagaattagaactcattattaaaaccattcttgcaag	CRISPR spacer
ctagaattagaactcattattaaaaccattcttgcaag	Protospacer
**************************************

21. spacer 9.1|1935511|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 0, identity: 1.0

ctagaattagaactcattattaaaaccattcttgcaag	CRISPR spacer
ctagaattagaactcattattaaaaccattcttgcaag	Protospacer
**************************************

22. spacer 9.1|1935511|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 0, identity: 1.0

ctagaattagaactcattattaaaaccattcttgcaag	CRISPR spacer
ctagaattagaactcattattaaaaccattcttgcaag	Protospacer
**************************************

23. spacer 9.2|1935578|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to GU949551 (Clostridium phage phiCD6356, complete genome) position: , mismatch: 0, identity: 1.0

taatctgacacatacaaagttgaacctagtggtacgg	CRISPR spacer
taatctgacacatacaaagttgaacctagtggtacgg	Protospacer
*************************************

24. spacer 9.4|1935710|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KU057941 (Clostridium phage CDSH1, complete genome) position: , mismatch: 0, identity: 1.0

tggtatatcatactcgtgcattgcctgctccacatt	CRISPR spacer
tggtatatcatactcgtgcattgcctgctccacatt	Protospacer
************************************

25. spacer 9.4|1935710|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HM568888 (Clostridium phage phiCD38-2, complete genome) position: , mismatch: 0, identity: 1.0

tggtatatcatactcgtgcattgcctgctccacatt	CRISPR spacer
tggtatatcatactcgtgcattgcctgctccacatt	Protospacer
************************************

26. spacer 9.4|1935710|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028958 (Clostridium phage phiCD146, complete genome) position: , mismatch: 0, identity: 1.0

tggtatatcatactcgtgcattgcctgctccacatt	CRISPR spacer
tggtatatcatactcgtgcattgcctgctccacatt	Protospacer
************************************

27. spacer 9.4|1935710|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN881738 (Escherichia phage slur17, complete genome) position: , mismatch: 0, identity: 1.0

tggtatatcatactcgtgcattgcctgctccacatt	CRISPR spacer
tggtatatcatactcgtgcattgcctgctccacatt	Protospacer
************************************

28. spacer 9.6|1935841|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to FN668942 (Clostridium difficile BI1 plasmid pCDBI1, complete sequence) position: , mismatch: 0, identity: 1.0

ttttttaacttttcagttctcacaggcgtttcatct	CRISPR spacer
ttttttaacttttcagttctcacaggcgtttcatct	Protospacer
************************************

29. spacer 9.15|1936430|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_MF547664 (Clostridioides difficile strain LIBA-6289 plasmid LIBA6289, complete sequence) position: , mismatch: 0, identity: 1.0

tcaatatctatattaagtttatttttaaaaacatctt	CRISPR spacer
tcaatatctatattaagtttatttttaaaaacatctt	Protospacer
*************************************

30. spacer 11.13|2663737|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 0, identity: 1.0

ttgtagattttgtaagtaatggtttttcggaaaaag	CRISPR spacer
ttgtagattttgtaagtaatggtttttcggaaaaag	Protospacer
************************************

31. spacer 11.13|2663737|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 0, identity: 1.0

ttgtagattttgtaagtaatggtttttcggaaaaag	CRISPR spacer
ttgtagattttgtaagtaatggtttttcggaaaaag	Protospacer
************************************

32. spacer 11.14|2663802|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681539 (Clostridium phage phiCD505, complete genome) position: , mismatch: 0, identity: 1.0

aaaataagctatgaagctaaaggagaaatgaaaggag	CRISPR spacer
aaaataagctatgaagctaaaggagaaatgaaaggag	Protospacer
*************************************

33. spacer 11.14|2663802|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 0, identity: 1.0

aaaataagctatgaagctaaaggagaaatgaaaggag	CRISPR spacer
aaaataagctatgaagctaaaggagaaatgaaaggag	Protospacer
*************************************

34. spacer 11.14|2663802|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 0, identity: 1.0

aaaataagctatgaagctaaaggagaaatgaaaggag	CRISPR spacer
aaaataagctatgaagctaaaggagaaatgaaaggag	Protospacer
*************************************

35. spacer 11.14|2663802|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 0, identity: 1.0

aaaataagctatgaagctaaaggagaaatgaaaggag	CRISPR spacer
aaaataagctatgaagctaaaggagaaatgaaaggag	Protospacer
*************************************

36. spacer 11.14|2663802|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 0, identity: 1.0

aaaataagctatgaagctaaaggagaaatgaaaggag	CRISPR spacer
aaaataagctatgaagctaaaggagaaatgaaaggag	Protospacer
*************************************

37. spacer 20.5|3397485|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP020426 (Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

gagaattatattgaacgattaggagatattgaagagtt	CRISPR spacer
gagaattatattgaacgattaggagatattgaagagtt	Protospacer
**************************************

38. spacer 20.5|3397485|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to CP011970 (Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence) position: , mismatch: 0, identity: 1.0

gagaattatattgaacgattaggagatattgaagagtt	CRISPR spacer
gagaattatattgaacgattaggagatattgaagagtt	Protospacer
**************************************

39. spacer 20.5|3397485|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681537 (Clostridium phage phiCD211, complete genome) position: , mismatch: 0, identity: 1.0

gagaattatattgaacgattaggagatattgaagagtt	CRISPR spacer
gagaattatattgaacgattaggagatattgaagagtt	Protospacer
**************************************

40. spacer 21.8|3455969|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP020426 (Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tattaaaaaattactacctttaagttgaccttttaaa	CRISPR spacer
tattaaaaaattactacctttaagttgaccttttaaa	Protospacer
*************************************

41. spacer 21.8|3455969|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to CP011970 (Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence) position: , mismatch: 0, identity: 1.0

tattaaaaaattactacctttaagttgaccttttaaa	CRISPR spacer
tattaaaaaattactacctttaagttgaccttttaaa	Protospacer
*************************************

42. spacer 21.8|3455969|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681537 (Clostridium phage phiCD211, complete genome) position: , mismatch: 0, identity: 1.0

tattaaaaaattactacctttaagttgaccttttaaa	CRISPR spacer
tattaaaaaattactacctttaagttgaccttttaaa	Protospacer
*************************************

43. spacer 21.9|3456035|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP020426 (Clostridioides difficile strain FDAARGOS_267 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

aaatattagatagaatagggataaatgaagaatatg	CRISPR spacer
aaatattagatagaatagggataaatgaagaatatg	Protospacer
************************************

44. spacer 21.9|3456035|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to CP011970 (Peptoclostridium phage phiCDIF1296T strain DSM 1296, complete sequence) position: , mismatch: 0, identity: 1.0

aaatattagatagaatagggataaatgaagaatatg	CRISPR spacer
aaatattagatagaatagggataaatgaagaatatg	Protospacer
************************************

45. spacer 21.9|3456035|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681537 (Clostridium phage phiCD211, complete genome) position: , mismatch: 0, identity: 1.0

aaatattagatagaatagggataaatgaagaatatg	CRISPR spacer
aaatattagatagaatagggataaatgaagaatatg	Protospacer
************************************

46. spacer 21.18|3456627|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to GU949551 (Clostridium phage phiCD6356, complete genome) position: , mismatch: 0, identity: 1.0

gttattcagatgcatataaaaacgcaggtcaaacctt	CRISPR spacer
gttattcagatgcatataaaaacgcaggtcaaacctt	Protospacer
*************************************

47. spacer 21.19|3456693|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681539 (Clostridium phage phiCD505, complete genome) position: , mismatch: 0, identity: 1.0

aaattgaagtaataaagaaaataagctatgaagctaa	CRISPR spacer
aaattgaagtaataaagaaaataagctatgaagctaa	Protospacer
*************************************

48. spacer 21.19|3456693|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 0, identity: 1.0

aaattgaagtaataaagaaaataagctatgaagctaa	CRISPR spacer
aaattgaagtaataaagaaaataagctatgaagctaa	Protospacer
*************************************

49. spacer 21.19|3456693|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 0, identity: 1.0

aaattgaagtaataaagaaaataagctatgaagctaa	CRISPR spacer
aaattgaagtaataaagaaaataagctatgaagctaa	Protospacer
*************************************

50. spacer 21.19|3456693|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 0, identity: 1.0

aaattgaagtaataaagaaaataagctatgaagctaa	CRISPR spacer
aaattgaagtaataaagaaaataagctatgaagctaa	Protospacer
*************************************

51. spacer 21.19|3456693|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 0, identity: 1.0

aaattgaagtaataaagaaaataagctatgaagctaa	CRISPR spacer
aaattgaagtaataaagaaaataagctatgaagctaa	Protospacer
*************************************

52. spacer 2.1|143453|34|NC_009089|CRISPRCasFinder matches to NZ_CP033215 (Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence) position: , mismatch: 1, identity: 0.971

aaactgaacgcatgtgaagtttgtttgttggcgc	CRISPR spacer
aaactgaacacatgtgaagtttgtttgttggcgc	Protospacer
*********.************************

53. spacer 4.3|1125755|37|NC_009089|CRISPRCasFinder matches to LN681542 (Clostridium phage phiMMP03, complete genome) position: , mismatch: 1, identity: 0.973

agtacatacaaagagtctataaaattatctataaagg	CRISPR spacer
agtacatacaaagagtttataaaattatctataaagg	Protospacer
****************.********************

54. spacer 4.3|1125755|37|NC_009089|CRISPRCasFinder matches to HG531805 (Clostridium phage CDMH1 complete genome) position: , mismatch: 1, identity: 0.973

agtacatacaaagagtctataaaattatctataaagg	CRISPR spacer
agtacatacaaagagtttataaaattatctataaagg	Protospacer
****************.********************

55. spacer 4.3|1125755|37|NC_009089|CRISPRCasFinder matches to NC_009231 (Clostridium phage phiC2, complete genome) position: , mismatch: 1, identity: 0.973

agtacatacaaagagtctataaaattatctataaagg	CRISPR spacer
agtacatacaaagagtttataaaattatctataaagg	Protospacer
****************.********************

56. spacer 4.3|1125755|37|NC_009089|CRISPRCasFinder matches to LN681541 (Clostridium phage phiMMP01, complete genome) position: , mismatch: 1, identity: 0.973

agtacatacaaagagtctataaaattatctataaagg	CRISPR spacer
agtacatacaaagagtttataaaattatctataaagg	Protospacer
****************.********************

57. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_048665 (Clostridium phage phiCDHM14, complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ctaagagtggtttaagaaaataagttatttttcaaa	Protospacer
 ***********************************

58. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HG796225 (Clostridium phage phiCDHM13 complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ctaagagtggtttaagaaaataagttatttttcaaa	Protospacer
 ***********************************

59. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681538 (Clostridium phage phiCD481-1, complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ctaagagtggtttaagaaaataagttatttttcaaa	Protospacer
 ***********************************

60. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HG798901 (Clostridium phage phiCDHM11 complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ctaagagtggtttaagaaaataagttatttttcaaa	Protospacer
 ***********************************

61. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to MK473382 (Clostridium phage JD032, complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggttaaagaaaataagttatttttcaaa	Protospacer
************ ***********************

62. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028838 (Clostridium phage phiCD506, complete genome) position: , mismatch: 1, identity: 0.972

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggttaaagaaaataagttatttttcaaa	Protospacer
************ ***********************

63. spacer 8.4|1756504|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028958 (Clostridium phage phiCD146, complete genome) position: , mismatch: 1, identity: 0.973

gctgaaagtttaaaagttttaactataaattcagttg	CRISPR spacer
gctgaaagtttaaaagttttaactataaattcagtgg	Protospacer
*********************************** *

64. spacer 8.8|1756766|39|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681539 (Clostridium phage phiCD505, complete genome) position: , mismatch: 1, identity: 0.974

ctcaaagttggactagcttcatcttttaattttacaagt	CRISPR spacer
ctcaaagttggactagcttcatcttttaattttacaatt	Protospacer
************************************* *

65. spacer 8.8|1756766|39|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 1, identity: 0.974

ctcaaagttggactagcttcatcttttaattttacaagt	CRISPR spacer
ctcaaagttggactagcttcatcttttaattttacaatt	Protospacer
************************************* *

66. spacer 8.8|1756766|39|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KX228400 (Clostridium phage CDKM15, complete genome) position: , mismatch: 1, identity: 0.974

ctcaaagttggactagcttcatcttttaattttacaagt	CRISPR spacer
ctcaaagttggactagcttcatcttttaattttacaatt	Protospacer
************************************* *

67. spacer 9.4|1935710|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028905 (Clostridium phage phiCD111, complete genome) position: , mismatch: 1, identity: 0.972

tggtatatcatactcgtgcattgcctgctccacatt	CRISPR spacer
tggtatatcatactcgtgcattgcctgctctacatt	Protospacer
******************************.*****

68. spacer 9.6|1935841|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KX905163 (Clostridioides phage phiSemix9P1, complete genome) position: , mismatch: 1, identity: 0.972

ttttttaacttttcagttctcacaggcgtttcatct	CRISPR spacer
ttttttaacttttcagttctcacaggtgtttcatct	Protospacer
**************************.*********

69. spacer 19.1|3396850|37|NC_009089|CRISPRCasFinder matches to LN681542 (Clostridium phage phiMMP03, complete genome) position: , mismatch: 1, identity: 0.973

cctttatagataattttatagactctttgtatgtact	CRISPR spacer
cctttatagataattttataaactctttgtatgtact	Protospacer
********************.****************

70. spacer 19.1|3396850|37|NC_009089|CRISPRCasFinder matches to HG531805 (Clostridium phage CDMH1 complete genome) position: , mismatch: 1, identity: 0.973

cctttatagataattttatagactctttgtatgtact	CRISPR spacer
cctttatagataattttataaactctttgtatgtact	Protospacer
********************.****************

71. spacer 19.1|3396850|37|NC_009089|CRISPRCasFinder matches to NC_009231 (Clostridium phage phiC2, complete genome) position: , mismatch: 1, identity: 0.973

cctttatagataattttatagactctttgtatgtact	CRISPR spacer
cctttatagataattttataaactctttgtatgtact	Protospacer
********************.****************

72. spacer 19.1|3396850|37|NC_009089|CRISPRCasFinder matches to LN681541 (Clostridium phage phiMMP01, complete genome) position: , mismatch: 1, identity: 0.973

cctttatagataattttatagactctttgtatgtact	CRISPR spacer
cctttatagataattttataaactctttgtatgtact	Protospacer
********************.****************

73. spacer 21.5|3455772|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_028996 (Clostridium phage phiCDHM19, complete genome) position: , mismatch: 1, identity: 0.972

aagaaagagctattgaagcattaaacagaatacagg	CRISPR spacer
aagaaagagctattgaagtattaaacagaatacagg	Protospacer
******************.*****************

74. spacer 21.5|3455772|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to LN681541 (Clostridium phage phiMMP01, complete genome) position: , mismatch: 1, identity: 0.972

aagaaagagctattgaagcattaaacagaatacagg	CRISPR spacer
aagaaagagctattgaagtattaaacagaatacagg	Protospacer
******************.*****************

75. spacer 21.5|3455772|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 1, identity: 0.972

aagaaagagctattgaagcattaaacagaatacagg	CRISPR spacer
aagaaagagctattgaagtattaaacagaatacagg	Protospacer
******************.*****************

76. spacer 21.5|3455772|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_048642 (Clostridium phage CDKM9, complete genome) position: , mismatch: 1, identity: 0.972

aagaaagagctattgaagcattaaacagaatacagg	CRISPR spacer
aagaaagagctattgaagtattaaacagaatacagg	Protospacer
******************.*****************

77. spacer 21.7|3455903|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to MF547662 (Clostridioides phage LIBA6276, complete genome) position: , mismatch: 1, identity: 0.973

atttatataagtatgcaggtgaggggattttttgata	CRISPR spacer
atttatataagtatgcaggtgaggggattttttgaaa	Protospacer
*********************************** *

78. spacer 21.8|3455969|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to MF547662 (Clostridioides phage LIBA6276, complete genome) position: , mismatch: 1, identity: 0.973

tattaaaaaattactacctttaagttgaccttttaaa	CRISPR spacer
tattaaaaaattactacctttaagttgaccttttaat	Protospacer
************************************

79. spacer 21.8|3455969|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to MF547663 (Clostridioides phage LIBA2945, complete genome) position: , mismatch: 1, identity: 0.973

tattaaaaaattactacctttaagttgaccttttaaa	CRISPR spacer
tattaaaaaattactacctttaagttgaccttttaat	Protospacer
************************************

80. spacer 4.2|1125689|37|NC_009089|CRISPRCasFinder matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 2, identity: 0.946

gttgcatcattaaatattttccctacaaactcttttc	CRISPR spacer
gttgcatcattaaatatcttacctacaaactcttttc	Protospacer
*****************.** ****************

81. spacer 4.2|1125689|37|NC_009089|CRISPRCasFinder matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 2, identity: 0.946

gttgcatcattaaatattttccctacaaactcttttc	CRISPR spacer
gttgcatcattaaatatcttacctacaaactcttttc	Protospacer
*****************.** ****************

82. spacer 6.13|1435575|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028996 (Clostridium phage phiCDHM19, complete genome) position: , mismatch: 2, identity: 0.944

aacaaaaaagatacatctgtaactaatttttatact	CRISPR spacer
agtaaaaaagatacatctgtaactaatttttatact	Protospacer
*..*********************************

83. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN681539 (Clostridium phage phiCD505, complete genome) position: , mismatch: 2, identity: 0.944

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacactaacagctcaagataaacatggaatt	Protospacer
*********.*.************************

84. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_009231 (Clostridium phage phiC2, complete genome) position: , mismatch: 2, identity: 0.944

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacactaacagctcaagataaacatggaatt	Protospacer
*********.*.************************

85. spacer 8.7|1756700|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to MF547662 (Clostridioides phage LIBA6276, complete genome) position: , mismatch: 2, identity: 0.946

aggagataacttctattaaagataactttgatgtggt	CRISPR spacer
aggaaatgacttctattaaagataactttgatgtggt	Protospacer
****.**.*****************************

86. spacer 8.7|1756700|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to MF547663 (Clostridioides phage LIBA2945, complete genome) position: , mismatch: 2, identity: 0.946

aggagataacttctattaaagataactttgatgtggt	CRISPR spacer
aggaaatgacttctattaaagataactttgatgtggt	Protospacer
****.**.*****************************

87. spacer 9.3|1935644|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to MK473382 (Clostridium phage JD032, complete genome) position: , mismatch: 2, identity: 0.946

aaaagcgttcttaaatcgttacttaactcttgcaaat	CRISPR spacer
aaaattgttcttaaatcgttacttaactcttgcaaat	Protospacer
**** .*******************************

88. spacer 9.11|1936169|35|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to LN881738 (Escherichia phage slur17, complete genome) position: , mismatch: 2, identity: 0.943

tgaactttaatcggttttatacaacaatataacgc	CRISPR spacer
tgaactttaaccggttttatgcaacaatataacgc	Protospacer
**********.*********.**************

89. spacer 9.11|1936169|35|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to KU057941 (Clostridium phage CDSH1, complete genome) position: , mismatch: 2, identity: 0.943

tgaactttaatcggttttatacaacaatataacgc	CRISPR spacer
tgaactttaaccggttttatgcaacaatataacgc	Protospacer
**********.*********.**************

90. spacer 9.11|1936169|35|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to HM568888 (Clostridium phage phiCD38-2, complete genome) position: , mismatch: 2, identity: 0.943

tgaactttaatcggttttatacaacaatataacgc	CRISPR spacer
tgaactttaaccggttttatgcaacaatataacgc	Protospacer
**********.*********.**************

91. spacer 9.11|1936169|35|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028958 (Clostridium phage phiCD146, complete genome) position: , mismatch: 2, identity: 0.943

tgaactttaatcggttttatacaacaatataacgc	CRISPR spacer
tgaactttaaccggttttatgcaacaatataacgc	Protospacer
**********.*********.**************

92. spacer 10.1|2298639|36|NC_009089|PILER-CR matches to KU057941 (Clostridium phage CDSH1, complete genome) position: , mismatch: 2, identity: 0.944

taagactagcagactcataagcaattagttgcctct	CRISPR spacer
taagaccagcagactcataagcaattagttgtctct	Protospacer
******.************************.****

93. spacer 10.1|2298639|36|NC_009089|PILER-CR matches to NC_028958 (Clostridium phage phiCD146, complete genome) position: , mismatch: 2, identity: 0.944

taagactagcagactcataagcaattagttgcctct	CRISPR spacer
taagaccagcagactcataagcaattagttgtctct	Protospacer
******.************************.****

94. spacer 10.1|2298639|36|NC_009089|PILER-CR matches to LN680008 (Clostridium phage phiCDHS1 gp04 gene for putative capsid protein) position: , mismatch: 2, identity: 0.944

taagactagcagactcataagcaattagttgcctct	CRISPR spacer
taagaccagcagactcataagcaattagttgtctct	Protospacer
******.************************.****

95. spacer 10.1|2298639|36|NC_009089|PILER-CR matches to LN881738 (Escherichia phage slur17, complete genome) position: , mismatch: 2, identity: 0.944

taagactagcagactcataagcaattagttgcctct	CRISPR spacer
taagaccagcagactcataagcaattagttgtctct	Protospacer
******.************************.****

96. spacer 11.1|2662945|36|NC_009089|CRISPRCasFinder,CRT matches to NZ_MG973074 (Clostridioides difficile strain HSJD-312 plasmid pHSJD-312, complete sequence) position: , mismatch: 2, identity: 0.944

acaattattaattgttttattagtgaaatcacagca	CRISPR spacer
acaattattaattgttttattaataaaatcacagca	Protospacer
**********************.*.***********

97. spacer 19.2|3396916|37|NC_009089|CRISPRCasFinder matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 2, identity: 0.946

gaaaagagtttgtagggaaaatatttaatgatgcaac	CRISPR spacer
gaaaagagtttgtaggtaagatatttaatgatgcaac	Protospacer
**************** **.*****************

98. spacer 19.2|3396916|37|NC_009089|CRISPRCasFinder matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 2, identity: 0.946

gaaaagagtttgtagggaaaatatttaatgatgcaac	CRISPR spacer
gaaaagagtttgtaggtaagatatttaatgatgcaac	Protospacer
**************** **.*****************

99. spacer 19.4|3396858|38|NC_009089|PILER-CR matches to LN681542 (Clostridium phage phiMMP03, complete genome) position: , mismatch: 2, identity: 0.947

cctttatagataattttatagactctttgtatgtacta	CRISPR spacer
cctttatagataattttataaactctttgtatgtactt	Protospacer
********************.****************

100. spacer 19.4|3396858|38|NC_009089|PILER-CR matches to HG531805 (Clostridium phage CDMH1 complete genome) position: , mismatch: 2, identity: 0.947

cctttatagataattttatagactctttgtatgtacta	CRISPR spacer
cctttatagataattttataaactctttgtatgtactt	Protospacer
********************.****************

101. spacer 19.4|3396858|38|NC_009089|PILER-CR matches to NC_009231 (Clostridium phage phiC2, complete genome) position: , mismatch: 2, identity: 0.947

cctttatagataattttatagactctttgtatgtacta	CRISPR spacer
cctttatagataattttataaactctttgtatgtactt	Protospacer
********************.****************

102. spacer 19.4|3396858|38|NC_009089|PILER-CR matches to LN681541 (Clostridium phage phiMMP01, complete genome) position: , mismatch: 2, identity: 0.947

cctttatagataattttatagactctttgtatgtacta	CRISPR spacer
cctttatagataattttataaactctttgtatgtactt	Protospacer
********************.****************

103. spacer 22.1|4150252|38|NC_009089|CRISPRCasFinder matches to NZ_CP033215 (Clostridioides difficile strain 12038 plasmid unnamed1, complete sequence) position: , mismatch: 2, identity: 0.947

aaacaaacttcacatgcgttcagtttattctgttgcta	CRISPR spacer
aaacaaacttcacatgtgttcagtttattctgttgctt	Protospacer
****************.********************

104. spacer 4.5|1125691|38|NC_009089|PILER-CR matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 3, identity: 0.921

gttgcatcattaaatattttccctacaaactcttttca	CRISPR spacer
gttgcatcattaaatatcttacctacaaactcttttct	Protospacer
*****************.** ****************

105. spacer 4.5|1125691|38|NC_009089|PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 3, identity: 0.921

gttgcatcattaaatattttccctacaaactcttttca	CRISPR spacer
gttgcatcattaaatatcttacctacaaactcttttct	Protospacer
*****************.** ****************

106. spacer 6.8|1435248|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028905 (Clostridium phage phiCD111, complete genome) position: , mismatch: 3, identity: 0.917

ataagagtggtttaagaaaataagttatttttcaaa	CRISPR spacer
ataagagtggtttaagaaaataagttatttttaatc	Protospacer
******************************** *

107. spacer 6.13|1435575|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to AY855346 (Clostridium difficile bacteriophage phi CD119, complete genome) position: , mismatch: 3, identity: 0.917

aacaaaaaagatacatctgtaactaatttttatact	CRISPR spacer
agtaaaaaagatacatctgtaactattttttatact	Protospacer
*..********************** **********

108. spacer 6.13|1435575|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_007917 (Clostridium phage phi CD119, complete genome) position: , mismatch: 3, identity: 0.917

aacaaaaaagatacatctgtaactaatttttatact	CRISPR spacer
agtaaaaaagatacatctgtaactattttttatact	Protospacer
*..********************** **********

109. spacer 8.8|1756766|39|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 3, identity: 0.923

ctcaaagttggactagcttcatcttttaattttacaagt	CRISPR spacer
ctcaatgttggactagcttcatcttttagttttacaatt	Protospacer
***** **********************.******** *

110. spacer 19.5|3396924|38|NC_009089|PILER-CR matches to JX145341 (Clostridium phage phiMMP02, complete genome) position: , mismatch: 3, identity: 0.921

gaaaagagtttgtagggaaaatatttaatgatgcaacc	CRISPR spacer
gaaaagagtttgtaggtaagatatttaatgatgcaaca	Protospacer
**************** **.*****************

111. spacer 19.5|3396924|38|NC_009089|PILER-CR matches to NC_011398 (Clostridium phage phiCD27, complete genome) position: , mismatch: 3, identity: 0.921

gaaaagagtttgtagggaaaatatttaatgatgcaacc	CRISPR spacer
gaaaagagtttgtaggtaagatatttaatgatgcaaca	Protospacer
**************** **.*****************

112. spacer 18.3|3304027|25|NC_009089|CRISPRCasFinder matches to MN694568 (Marine virus AFVG_250M879, complete genome) position: , mismatch: 4, identity: 0.84

tactattggttcatctgtatttggt	CRISPR spacer
tcaatttggttcatctgtatttggt	Protospacer
*    ********************

113. spacer 18.3|3304027|25|NC_009089|CRISPRCasFinder matches to HQ634174 (Cyanophage MED4-213, complete genome) position: , mismatch: 4, identity: 0.84

tactattggttcatctgtatttggt	CRISPR spacer
tgctattggtgcatctgtatttgaa	Protospacer
*.******** ************.

114. spacer 18.3|3304027|25|NC_009089|CRISPRCasFinder matches to GU071101 (Prochlorococcus phage P-HM1, complete genome) position: , mismatch: 4, identity: 0.84

tactattggttcatctgtatttggt	CRISPR spacer
tgctattggtgcatctgtatttgaa	Protospacer
*.******** ************.

115. spacer 9.3|1935644|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_028838 (Clostridium phage phiCD506, complete genome) position: , mismatch: 5, identity: 0.865

aaaagcgttcttaaatcgttacttaactcttgcaaat	CRISPR spacer
agaattgttcttaaatcgtcacttaactcttgtaaat	Protospacer
*.** .*************.************.****

116. spacer 1.1|141438|29|NC_009089|CRISPRCasFinder matches to KY971610 (Pseudomonas phage PspYZU05, complete genome) position: , mismatch: 6, identity: 0.793

tgtaataagttaaagcaatatgaatcaac	CRISPR spacer
tacgataagttacagcaatacgaatcatc	Protospacer
*...******** *******.****** *

117. spacer 7.6|1645556|38|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP016840 (Brochothrix thermosphacta strain TMW 2.1564 plasmid pL21564-1, complete sequence) position: , mismatch: 6, identity: 0.842

ctatcaatatatattttataagcataagttttacgcat-	CRISPR spacer
atatcattatctattttataagcataagtttt-caaata	Protospacer
 ***** *** ********************* *. **

118. spacer 10.2|2298711|30|NC_009089|PILER-CR matches to MN694267 (Marine virus AFVG_250M705, complete genome) position: , mismatch: 6, identity: 0.8

tagaggctctcagagaagttataagatgtt	CRISPR spacer
caaaggctcttagagaagttttaagagctt	Protospacer
.*.*******.********* *****  **

119. spacer 11.11|2663603|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to AY855346 (Clostridium difficile bacteriophage phi CD119, complete genome) position: , mismatch: 6, identity: 0.842

tttatatcagtctttttagtcgctgtctgaatctcctc	CRISPR spacer
tttatgtcagtctttttagtcgctgtctgtgccacttc	Protospacer
*****.*********************** ..* *.**

120. spacer 11.11|2663603|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_007917 (Clostridium phage phi CD119, complete genome) position: , mismatch: 6, identity: 0.842

tttatatcagtctttttagtcgctgtctgaatctcctc	CRISPR spacer
tttatgtcagtctttttagtcgctgtctgtgccacttc	Protospacer
*****.*********************** ..* *.**

121. spacer 11.11|2663603|38|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_028996 (Clostridium phage phiCDHM19, complete genome) position: , mismatch: 6, identity: 0.842

tttatatcagtctttttagtcgctgtctgaatctcctc	CRISPR spacer
tttatgtcagtctttttagtcgctgtctgtgccacttc	Protospacer
*****.*********************** ..* *.**

122. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to MG869618 (Polaromonas sp. E5S plasmid pE5SP1, complete sequence) position: , mismatch: 7, identity: 0.774

caatacctctggtattggcggatttattata	CRISPR spacer
cagcacctctggtactggctgatttatcttt	Protospacer
**..**********.**** *******. *

123. spacer 9.13|1936299|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LR134399 (Listeria monocytogenes strain NCTC7974 plasmid 2, complete sequence) position: , mismatch: 8, identity: 0.778

ttcgtaaaataacaattatctggaatatg--agaagtt	CRISPR spacer
tcagtaaaataactattatcaggaatatgctggaaa--	Protospacer
*. ********** ****** ********  .***.

124. spacer 9.15|1936430|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017256 (Clostridium taeniosporum strain 1/k plasmid pCt3, complete sequence) position: , mismatch: 8, identity: 0.784

tcaatatctatattaagtttatttttaaaaacatctt-----	CRISPR spacer
tcaatatttatattaactttattttta-----gtcttcattt	Protospacer
*******.******** **********     .****

125. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to LR606148 (Rhizobium sp. Q54 genome assembly, plasmid: 5) position: , mismatch: 8, identity: 0.742

caatacctctggtattggcggatttattata	CRISPR spacer
cgagcaacttggtattggcggatttatgata	Protospacer
*.*    ..****************** ***

126. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KY940428 (UNVERIFIED: Bacillus sp. (in: Bacteria) strain PUMK-07 plasmid pMK-07, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

127. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP047087 (Bacillus paranthracis strain BC307 plasmid pCE2, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

128. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP041978 (Bacillus pacificus strain NCCP 15909 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

129. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to CP041980 (Bacillus paranthracis strain NCCP 15910 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

130. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to CP041752 (Bacillus paranthracis strain NCCP 14796 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

131. spacer 7.3|1645355|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP040343 (Bacillus cereus strain DLOU-Weihai plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.757

ggagatttaaaagttaacaacataaaaatgatagata	CRISPR spacer
tatgatttaaatgttaaaaacataaaaatattataaa	Protospacer
 . ******** ***** ***********. ** * *

132. spacer 9.15|1936430|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP047434 (Spiroplasma citri strain BLH-13 plasmid pSciBLH13-6) position: , mismatch: 9, identity: 0.757

tcaatatctatattaagtttatttttaa---aaacatctt	CRISPR spacer
tttatatctttattaattttatttttaaattaaataa---	Protospacer
*. ****** ****** ***********   ***.*

133. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to NZ_MK748464 (Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-PNG-07060 clone Ren-PNG-07060, complete sequence) position: , mismatch: 9, identity: 0.71

caatacctctggtattggcggatttattata	CRISPR spacer
tgcagcctctgatattggcgtatttattact	Protospacer
..  .******.******** ********.

134. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to NZ_MK748465 (Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-PNG-07113 clone Ren-PNG-07113, complete sequence) position: , mismatch: 9, identity: 0.71

caatacctctggtattggcggatttattata	CRISPR spacer
tgcagcctctgatattggcgtatttattact	Protospacer
..  .******.******** ********.

135. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to NZ_MK748462 (Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-Bali-16-03 clone Ren-Bali-16-03, complete sequence) position: , mismatch: 9, identity: 0.71

caatacctctggtattggcggatttattata	CRISPR spacer
tgcagcctctgatattggcgtatttattact	Protospacer
..  .******.******** ********.

136. spacer 18.1|3303892|31|NC_009089|CRISPRCasFinder matches to NZ_MK748463 (Candidatus Endohaliclona renieramycinifaciens plasmid p-ren_Ren-Pal-02 clone Ren-Pal-02, complete sequence) position: , mismatch: 9, identity: 0.71

caatacctctggtattggcggatttattata	CRISPR spacer
tgcagcctctgatattggcgtatttattact	Protospacer
..  .******.******** ********.

137. spacer 9.15|1936430|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP035115 (Lactobacillus plantarum strain SRCM103295 plasmid unnamed2) position: , mismatch: 10, identity: 0.73

tcaatatctatattaagtttatttttaaaaacatctt	CRISPR spacer
ttacaaaatagattaagtttattttaaaaaacattcc	Protospacer
*.*  *  ** ************** ********...

138. spacer 9.15|1936430|37|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP035567 (Lactobacillus plantarum strain SRCM103300 plasmid unnamed1) position: , mismatch: 10, identity: 0.73

tcaatatctatattaagtttatttttaaaaacatctt	CRISPR spacer
ttacaaaatagattaagtttattttaaaaaacattcc	Protospacer
*.*  *  ** ************** ********...

139. spacer 11.1|2662945|36|NC_009089|CRISPRCasFinder,CRT matches to NZ_CP045274 (Bacillus megaterium strain FDU301 plasmid pFDU301B, complete sequence) position: , mismatch: 10, identity: 0.722

acaattattaattgttttattagtgaaatcacagca	CRISPR spacer
tgaattcttaattgttttattagagaaatacctttt	Protospacer
  **** **************** *****  *  .

140. spacer 11.13|2663737|36|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to AP014113 (Uncultured Mediterranean phage uvMED isolate uvMED-GF-C35-MedDCM-OCT-S46-C200, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 10, identity: 0.722

ttgtagattttgtaagtaatggtttttcggaaaaag	CRISPR spacer
ttgtagattttttaagtaatggttttaaaattagga	Protospacer
*********** **************  ..  *...

141. spacer 14.1|3139503|34|NC_009089|CRISPRCasFinder matches to MN856057 (Bacteriophage sp. isolate 161, complete genome) position: , mismatch: 10, identity: 0.706

tagcatctttccatatttgtctaaatagtaagac	CRISPR spacer
agacttcttaccatatttgtctacatagtcattt	Protospacer
 ..* **** ************* ***** *  .

142. spacer 14.1|3139503|34|NC_009089|CRISPRCasFinder matches to MN855979 (Bacteriophage sp. isolate 144, complete genome) position: , mismatch: 10, identity: 0.706

tagcatctttccatatttgtctaaatagtaagac	CRISPR spacer
agacttcttaccatatttgtctacatagtcattt	Protospacer
 ..* **** ************* ***** *  .

143. spacer 3.5|1125318|37|NC_009089|CRISPRCasFinder,CRT matches to LC557520 (Staphylococcus phage vB_SsapH-Golestan101-M DNA, complete genome) position: , mismatch: 11, identity: 0.703

ttcgcaacttatgatggtgaaatgattacattaacag	CRISPR spacer
attaagacttttgatggagaaatgattacatttgatg	Protospacer
 *.. .**** ****** ************** .  *

144. spacer 11.10|2663537|37|NC_009089|CRISPRCasFinder,CRT,PILER-CR matches to NC_018878 (Bacillus thuringiensis Bt407 plasmid BTB_502p, complete sequence) position: , mismatch: 11, identity: 0.703

gttcatcagatggatatgcaaatggagatataaagtt	CRISPR spacer
caatagaagatggttatgcaaatggagatatgaaaaa	Protospacer
   .*  ****** *****************.**.

145. spacer 14.1|3139503|34|NC_009089|CRISPRCasFinder matches to NZ_CP022366 (Azospirillum sp. TSH58 plasmid TSH58_p04, complete sequence) position: , mismatch: 11, identity: 0.676

tagcatctttccatatttgtctaaatagtaagac	CRISPR spacer
cctcatatttccatatttgtcaaaatatggaaga	Protospacer
.  *** ************** *****  .*..

146. spacer 20.2|3397287|37|NC_009089|CRISPRCasFinder,CRT matches to LC557520 (Staphylococcus phage vB_SsapH-Golestan101-M DNA, complete genome) position: , mismatch: 11, identity: 0.703

ctgttaatgtaatcatttcaccatcataagttgcgaa	CRISPR spacer
catcaaatgtaatcatttctccatcaaaagtcttaat	Protospacer
*  . ************** ****** ****. ..*

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

278947 : 292556

Synechococcus_phage(30.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003435056.1\|278947_279346_+\|transposase	IS200/IS605 family transposase	A0A0A8WIU6	Clostridium_phage	2.5e-69	96.2
WP_003435058.1\|279342_280506_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A0A8WI33	Clostridium_phage	1.7e-219	99.0
WP_011860676.1\|280760_281273_-	nitroreductase family protein	A0A1V0E011	Clostridioides_phage	1.0e-83	87.1
WP_003425290.1\|281722_282199_+	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	6.9e-26	45.8
WP_003420966.1\|282204_282903_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3F9V5	Synechococcus_phage	1.5e-45	43.9
WP_003425288.1\|282914_284282_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	2.6e-49	31.0
WP_009895312.1\|284275_285352_+	phosphoribosylformylglycinamidine cyclo-ligase	R9TMC7	Synechococcus_phage	2.2e-64	42.2
WP_003436064.1\|285345_285939_+	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	4.3e-25	40.4
WP_003436063.1\|285931_287464_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	E3SNU8	Prochlorococcus_phage	2.3e-38	49.7
WP_003436062.1\|287474_288725_+	phosphoribosylamine--glycine ligase	NA	NA	NA	NA
WP_011860677.1\|288749_292556_+	phosphoribosylformylglycinamidine synthase	A6N228	Microbacterium_phage	4.0e-31	24.4

DBSCAN-SWA_2

435771 : 453332

Streptococcus_phage(78.57%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011860752.1\|435771_436542_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	3.4e-30	36.5
WP_011860753.1\|436714_437446_-	ABC transporter permease	NA	NA	NA	NA
WP_011860754.1\|437438_438365_-	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	6.9e-46	44.2
WP_161792808.1\|438434_439349_-	HAMP domain-containing histidine kinase	NA	NA	NA	NA
WP_011860756.1\|439345_440038_-	response regulator transcription factor	W8CYM9	Bacillus_phage	2.2e-33	36.9
WP_011860757.1\|440068_440293_-	hypothetical protein	NA	NA	NA	NA
WP_003063668.1\|440310_440511_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_011860758.1\|440598_441510_-	conjugal transfer protein	A0A1S5SF22	Streptococcus_phage	4.5e-82	52.1
WP_011860759.1\|441525_442533_-	peptidase P60	A0A1S5SEZ8	Streptococcus_phage	2.5e-134	69.6
WP_011860760.1\|442529_444737_-	MFS transporter	A0A1S5SF30	Streptococcus_phage	1.3e-188	60.8
WP_011860761.1\|444736_447187_-	ATP-binding protein	A0A1S5SF64	Streptococcus_phage	0.0e+00	75.8
WP_004843362.1\|447164_447563_-	conjugal transfer protein	A0A1S5SEX7	Streptococcus_phage	3.2e-48	73.0
WP_011860762.1\|447676_448180_-	antirestriction protein ArdA	A0A1S5SF25	Streptococcus_phage	6.4e-54	60.2
WP_011860763.1\|448197_448701_-	antirestriction protein	NA	NA	NA	NA
WP_011860764.1\|448619_448916_-	conjugal transfer protein	NA	NA	NA	NA
WP_002317729.1\|448991_449213_-	hypothetical protein	A0A1S5SEY0	Streptococcus_phage	1.2e-28	86.3
WP_011860765.1\|449213_449348_-	DUF3789 domain-containing protein	NA	NA	NA	NA
WP_113655958.1\|449359_450550_-	XRE family transcriptional regulator	A0A1S5SEX3	Streptococcus_phage	5.1e-142	61.4
WP_011860767.1\|450810_451209_-\|transposase	transposase	NA	NA	NA	NA
WP_011860768.1\|451220_452591_-	cell division protein FtsK	A0A1S5SFB5	Streptococcus_phage	1.2e-174	66.2
WP_042741546.1\|452607_452991_-	YdcP family protein	A0A1S5SF96	Streptococcus_phage	2.4e-37	64.6
WP_011860770.1\|453005_453332_-	YdcP family protein	A0A1S5SF38	Streptococcus_phage	5.6e-35	66.7

DBSCAN-SWA_3

585694 : 606777

Streptococcus_phage(76.19%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002324559.1\|585694_586009_+	YdcP family protein	A0A1S5SF38	Streptococcus_phage	7.0e-51	93.3
WP_002324558.1\|586030_586417_+	YdcP family protein	A0A1S5SF96	Streptococcus_phage	7.8e-60	92.1
WP_002324557.1\|586450_587836_+	DNA translocase FtsK	A0A1S5SFB5	Streptococcus_phage	1.0e-234	88.1
WP_011860839.1\|587838_587991_+	hypothetical protein	NA	NA	NA	NA
WP_025186485.1\|588012_589218_+	XRE family transcriptional regulator	A0A1S5SEX3	Streptococcus_phage	1.2e-218	93.0
WP_001009056.1\|589260_589482_+	hypothetical protein	A0A1S5SEY0	Streptococcus_phage	4.3e-31	100.0
WP_002324555.1\|589598_590096_+	antirestriction protein ArdA	A0A1S5SF25	Streptococcus_phage	6.7e-88	96.4
WP_002324554.1\|590183_590576_+	conjugal transfer protein	A0A1S5SEX7	Streptococcus_phage	9.3e-69	99.2
WP_002324553.1\|590559_593007_+	ATP-binding protein	A0A1S5SF64	Streptococcus_phage	0.0e+00	95.6
WP_011860840.1\|593006_595175_+	YtxH domain-containing protein	A0A1S5SF30	Streptococcus_phage	2.1e-295	83.1
WP_022621483.1\|595171_596116_+	cell wall hydrolase Tn916-like,CTn6-Orf13	A0A1S5SEZ8	Streptococcus_phage	1.2e-167	94.2
WP_002335621.1\|596829_598659_+	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	3.8e-40	29.8
WP_071605613.1\|598658_598820_+	peptidase P60	A0A1S5SEZ8	Streptococcus_phage	5.0e-05	95.7
WP_002324550.1\|598816_599749_+	conjugal transfer protein	A0A1S5SF22	Streptococcus_phage	2.3e-150	87.4
WP_109271944.1\|599979_600018_+	hypothetical protein	NA	NA	NA	NA
WP_011860841.1\|600033_601953_+	tetracycline resistance ribosomal protection protein Tet(M)	A0A2K5B2A5	Erysipelothrix_phage	0.0e+00	92.5
WP_002319681.1\|602075_602243_+	conjugal transfer protein	D0R0F6	Streptococcus_phage	7.3e-15	66.0
WP_002324548.1\|602301_602655_-	helix-turn-helix transcriptional regulator	A0A1S5SFA6	Streptococcus_phage	4.6e-51	87.2
WP_002324547.1\|603156_603582_+	sigma-70 family RNA polymerase sigma factor	A0A1S5SEW0	Streptococcus_phage	4.1e-62	86.4
WP_002334012.1\|603578_603809_+	helix-turn-helix domain-containing protein	A0A1S5SEX1	Streptococcus_phage	6.9e-32	88.2
WP_002364935.1\|603930_604149_-	hypothetical protein	NA	NA	NA	NA
WP_002324545.1\|604189_604330_+	hypothetical protein	NA	NA	NA	NA
WP_002324544.1\|604426_606028_+	site-specific resolvase TndX	Q38184	Lactococcus_phage	2.6e-16	23.4
WP_042741433.1\|606128_606563_+	hypothetical protein	A0A1V0E025	Clostridioides_phage	2.7e-69	95.1
WP_003426367.1\|606588_606777_+	hypothetical protein	A0A1V0E014	Clostridioides_phage	1.4e-19	88.7

DBSCAN-SWA_4

1088174 : 1143688

Clostridium_phage(97.53%)

holin,plate,terminase,tail,integrase,portal,capsid

attL 1088001:1088023|attR 1143874:1143896

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1088001:1088023	attL	NA	NA	NA	NA
WP_011860983.1\|1088174_1089293_-\|integrase	site-specific integrase	X5JB41	Clostridium_phage	1.1e-207	100.0
WP_011860984.1\|1089800_1091465_-	DUF4041 domain-containing protein	X5JAC1	Clostridium_phage	1.7e-191	96.7
WP_011860985.1\|1091735_1093184_-	SAP domain-containing protein	NA	NA	NA	NA
WP_011860986.1\|1093831_1094164_-	helix-turn-helix transcriptional regulator	A0A0A8WJ60	Clostridium_phage	2.0e-19	57.1
WP_011860987.1\|1094325_1094514_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_011860988.1\|1094547_1095342_+	ORF6N domain-containing protein	X5JAW6	Clostridium_phage	1.8e-127	90.9
WP_011860989.1\|1095403_1095604_+	hypothetical protein	X5JAW7	Clostridium_phage	3.8e-26	95.1
WP_022583275.1\|1095642_1096212_-	hypothetical protein	X5JB43	Clostridium_phage	2.5e-99	96.8
WP_011860991.1\|1096281_1096479_+	helix-turn-helix transcriptional regulator	A0A0A8WJU5	Clostridium_phage	9.5e-30	98.5
WP_011860992.1\|1096495_1096825_+	helix-turn-helix domain-containing protein	X5JA04	Clostridium_phage	6.6e-52	99.1
WP_011860993.1\|1096926_1097115_+	hypothetical protein	A0A090EUJ0	Clostridium_phage	2.5e-24	95.2
WP_022583264.1\|1097130_1097343_+	hypothetical protein	A0A0A8WJ12	Clostridium_phage	1.2e-25	82.6
WP_011860995.1\|1097441_1097684_+	hypothetical protein	A0A0A8WFK1	Clostridium_phage	1.9e-35	95.0
WP_011860996.1\|1097767_1098283_+	siphovirus Gp157 family protein	A0A0A8WJQ2	Clostridium_phage	1.5e-82	97.0
WP_011860997.1\|1098284_1099187_+	phage recombination protein Bet	A8ATK8	Listeria_phage	5.5e-40	46.7
WP_011860998.1\|1099199_1100039_+	hypothetical protein	A0A0A8WI94	Clostridium_phage	1.5e-79	60.9
WP_011860999.1\|1100109_1100364_+	hypothetical protein	Q24LE4	Clostridium_phage	5.5e-46	100.0
WP_011861000.1\|1100437_1100701_+	hypothetical protein	Q24LE3	Clostridium_phage	4.5e-43	98.9
WP_011861001.1\|1100712_1101063_+	hypothetical protein	Q24LE2	Clostridium_phage	3.6e-64	100.0
WP_011861002.1\|1101066_1101447_+	hypothetical protein	X5JAK1	Clostridium_phage	2.0e-60	95.2
WP_021362052.1\|1101415_1101577_+	hypothetical protein	X5JAX0	Clostridium_phage	1.5e-17	97.9
WP_011861004.1\|1101551_1101710_+	hypothetical protein	X5JB46	Clostridium_phage	3.9e-18	100.0
WP_011861005.1\|1101706_1101880_+	DUF3797 domain-containing protein	Q24LE0	Clostridium_phage	1.9e-29	100.0
WP_011861007.1\|1101997_1102333_+	hypothetical protein	X5JAK2	Clostridium_phage	4.2e-62	100.0
WP_011861008.1\|1102432_1102708_+	hypothetical protein	X5JAX1	Clostridium_phage	1.2e-41	92.3
WP_011861009.1\|1102803_1103877_+	DNA (cytosine-5-)-methyltransferase	A0A0A8WIK9	Clostridium_phage	3.9e-210	100.0
WP_011861010.1\|1103956_1104166_+	hypothetical protein	J9QEC7	Clostridium_phage	3.5e-30	100.0
WP_011861011.1\|1104177_1105173_+	nucleoid-associated protein	A0A0A8WG36	Clostridium_phage	1.3e-151	82.0
WP_011861012.1\|1105181_1105907_+	phosphoadenosine phosphosulfate reductase family protein	Q24LD4	Clostridium_phage	2.4e-131	99.1
WP_011861013.1\|1105903_1106077_+	hypothetical protein	Q24LD3	Clostridium_phage	1.3e-27	100.0
WP_011861014.1\|1106069_1106441_+	hypothetical protein	Q24LD2	Clostridium_phage	9.1e-66	100.0
WP_011861015.1\|1106443_1106911_+	hypothetical protein	Q24LD1	Clostridium_phage	4.8e-72	100.0
WP_011861016.1\|1106989_1107175_+	hypothetical protein	Q24LD0	Clostridium_phage	5.4e-27	100.0
WP_015981545.1\|1107188_1107428_+	hypothetical protein	Q24LC9	Clostridium_phage	1.0e-41	100.0
WP_011861019.1\|1107556_1108363_+	DNA adenine methylase	Q24LC8	Clostridium_phage	1.3e-157	100.0
WP_011861020.1\|1108376_1108784_+	RusA family crossover junction endodeoxyribonuclease	A0A0A8WIA1	Clostridium_phage	3.3e-61	85.9
WP_011861021.1\|1108798_1109524_+	phage antirepressor Ant	A0A090DCZ8	Clostridium_phage	1.3e-129	99.6
WP_011861022.1\|1109617_1110106_+	hypothetical protein	A0A090EUN5	Clostridium_phage	6.1e-86	100.0
WP_009894739.1\|1110853_1111027_+	hypothetical protein	A0A0A8WJV0	Clostridium_phage	5.8e-23	100.0
WP_009894741.1\|1111026_1111638_+	hypothetical protein	A0A0A8WFI2	Clostridium_phage	6.9e-111	100.0
WP_009894742.1\|1111714_1111903_+	hypothetical protein	A0A0A8WIH0	Clostridium_phage	3.2e-27	100.0
WP_009894743.1\|1111882_1112200_-	hypothetical protein	A0A0A8WJ81	Clostridium_phage	5.2e-54	100.0
WP_009894744.1\|1112323_1112551_+	hypothetical protein	A0A0A8WFZ2	Clostridium_phage	2.1e-36	100.0
WP_011861025.1\|1112620_1113313_+	helix-turn-helix domain-containing protein	A0A0A8WFS6	Clostridium_phage	2.5e-117	94.3
WP_003433530.1\|1113290_1114544_+\|terminase	PBSX family phage terminase large subunit	X5JAB3	Clostridium_phage	3.0e-246	99.0
WP_011861027.1\|1114549_1115989_+\|portal	phage portal protein	A0A0A8WFC0	Clostridium_phage	1.2e-278	99.6
WP_003429838.1\|1115978_1117472_+\|capsid	minor capsid protein	X5JAI9	Clostridium_phage	1.1e-284	96.8
WP_009901430.1\|1117437_1117680_+	hypothetical protein	X5JAV8	Clostridium_phage	3.4e-37	100.0
WP_011861028.1\|1117989_1118553_+	scaffold protein	X5JAB4	Clostridium_phage	1.0e-84	89.8
WP_011861029.1\|1118564_1119464_+\|capsid	phage capsid protein	A0A0A8WFI8	Clostridium_phage	1.4e-168	99.7
WP_009896624.1\|1119463_1119697_+	hypothetical protein	A0A0A8WFD0	Clostridium_phage	1.4e-32	97.4
WP_009888836.1\|1119706_1120108_+	hypothetical protein	X5JAJ0	Clostridium_phage	8.1e-68	97.0
WP_003429844.1\|1120101_1120449_+	hypothetical protein	X5JAV9	Clostridium_phage	5.0e-58	100.0
WP_011861030.1\|1120448_1120874_+	HK97 gp10 family phage protein	X5JB35	Clostridium_phage	3.6e-74	97.2
WP_009901504.1\|1120866_1121304_+	hypothetical protein	A0A0A8WJT3	Clostridium_phage	1.1e-75	95.9
WP_011861031.1\|1121296_1121473_+	hypothetical protein	A0A0A8WFD8	Clostridium_phage	8.8e-19	86.2
WP_011861032.1\|1121474_1122785_+	hypothetical protein	X5JAJ1	Clostridium_phage	9.9e-232	92.4
WP_003429851.1\|1122801_1123272_+\|tail	phage tail tube protein	A0A0A8WJ62	Clostridium_phage	7.0e-71	82.1
WP_003429853.1\|1123343_1123784_+\|portal	phage portal protein	X5JAB6	Clostridium_phage	8.6e-47	63.7
WP_003429855.1\|1124124_1124286_+	hypothetical protein	A0A0A8WE04	Clostridium_phage	1.2e-14	84.3
WP_011861034.1\|1125949_1126510_+	lipoprotein	NA	NA	NA	NA
WP_011861035.1\|1126553_1127123_+	zinc-ribbon domain-containing protein	A0A0A8WFW4	Clostridium_phage	1.5e-27	37.4
WP_011861036.1\|1127193_1129545_+	tape measure protein	X5JAB7	Clostridium_phage	3.1e-252	61.8
WP_011861037.1\|1129560_1130250_+	LysM peptidoglycan-binding domain-containing protein	X5J9Z8	Clostridium_phage	4.1e-120	95.2
WP_011861038.1\|1130242_1132213_+	cell wall hydrolase	A0A0A8WIF2	Clostridium_phage	0.0e+00	86.5
WP_009901352.1\|1132226_1132487_+	DUF2577 domain-containing protein	A3QSB4	Clostridium_virus	1.7e-39	100.0
WP_011861039.1\|1132491_1132911_+	DUF2634 domain-containing protein	X5JB38	Clostridium_phage	2.5e-72	97.8
WP_011861040.1\|1132911_1133961_+\|plate	baseplate J/gp47 family protein	A0A0A8WFK0	Clostridium_phage	7.5e-190	97.1
WP_011861041.1\|1133953_1134571_+	YmfQ family protein	A0A0A8WFE8	Clostridium_phage	1.0e-114	98.0
WP_011861042.1\|1134582_1135386_+\|tail	phage tail protein	X5JAJ4	Clostridium_phage	3.4e-126	97.4
WP_021413561.1\|1135403_1137101_+	glycine rich family protein	X5JAW3	Clostridium_phage	3.7e-231	82.5
WP_011861044.1\|1137117_1137411_+	hypothetical protein	A0A0A8WIP3	Clostridium_phage	1.7e-46	94.8
WP_011861045.1\|1137410_1137593_+	hypothetical protein	A0A090D845	Clostridium_phage	1.0e-22	93.2
WP_011861046.1\|1137627_1137858_+	membrane protein	A0A0A8WJM3	Clostridium_phage	1.8e-32	100.0
WP_011861047.1\|1137877_1138138_+\|holin	holin	A0A0K2SUI8	Clostridium_phage	3.2e-41	96.5
WP_011861048.1\|1138134_1138950_+	N-acetylmuramoyl-L-alanine amidase	Q24LG3	Clostridium_phage	2.4e-151	97.4
WP_011861049.1\|1138966_1139263_+	hypothetical protein	Q24LG2	Clostridium_phage	7.3e-50	100.0
WP_011861051.1\|1139775_1140372_+	hypothetical protein	Q24LG1	Clostridium_phage	1.8e-95	99.5
WP_011861052.1\|1140389_1140821_+	hypothetical protein	Q24LG0	Clostridium_phage	1.9e-75	100.0
WP_011861053.1\|1140822_1141527_+	hypothetical protein	Q24LF8	Clostridium_phage	3.1e-70	99.3
WP_009898401.1\|1141774_1141963_-	hypothetical protein	A0A0A8WJ69	Clostridium_phage	3.1e-30	100.0
WP_011861054.1\|1142223_1142367_+	hypothetical protein	A0A0A8WJ06	Clostridium_phage	4.3e-16	95.7
WP_009898394.1\|1142980_1143262_+	phage regulatory protein	Q24LF7	Clostridium_phage	6.3e-43	100.0
WP_011861055.1\|1143301_1143688_+	transcriptional regulator	X5JAW5	Clostridium_phage	2.5e-66	99.2
1143874:1143896	attR	NA	NA	NA	NA

DBSCAN-SWA_5

1522192 : 1596384

Clostridium_phage(42.86%)

protease,tRNA,plate,transposase,tail,integrase,portal

attL 1521415:1521433|attR 1597861:1597879

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1521415:1521433	attL	NA	NA	NA	NA
WP_011861173.1\|1522192_1523311_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A0H3UZC2	Geobacillus_virus	2.4e-109	53.3
WP_003428232.1\|1523746_1524652_+\|tRNA	tRNA pseudouridine(55) synthase TruB	NA	NA	NA	NA
WP_003438310.1\|1524782_1525712_+	bifunctional riboflavin kinase/FAD synthetase	NA	NA	NA	NA
WP_003419491.1\|1525815_1526073_+	30S ribosomal protein S15	NA	NA	NA	NA
WP_009889099.1\|1526312_1527158_+	DegV family protein	NA	NA	NA	NA
WP_003438316.1\|1527282_1529394_+	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA
WP_003438319.1\|1529661_1530405_+	polysaccharide deacetylase family protein	NA	NA	NA	NA
WP_003438321.1\|1530562_1531810_+	insulinase family protein	G3MBJ8	Bacillus_virus	5.1e-52	35.1
WP_003419503.1\|1531844_1532090_+	YlmC/YmxH family sporulation protein	NA	NA	NA	NA
WP_003438324.1\|1532099_1533323_+	aspartate kinase	NA	NA	NA	NA
WP_003428224.1\|1533435_1534170_+\|protease	Clp protease	NA	NA	NA	NA
WP_003438328.1\|1534292_1536704_+	DNA translocase FtsK	A0A218M9A2	Mycobacterium_phage	3.3e-92	50.4
WP_011861175.1\|1536706_1537765_+\|tRNA	tRNA 2-selenouridine(34) synthase MnmH	NA	NA	NA	NA
WP_011861176.1\|1537758_1539093_+	30S ribosomal protein S12 methylthiotransferase RimO	NA	NA	NA	NA
WP_009889106.1\|1539079_1539622_+	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase	NA	NA	NA	NA
WP_003428218.1\|1539909_1540956_+	recombinase RecA	A0A0S2MVG1	Bacillus_phage	2.7e-123	63.5
WP_003428216.1\|1541131_1542673_+	ribonuclease Y	NA	NA	NA	NA
WP_011861177.1\|1543307_1545089_+	UvrD-helicase domain-containing protein	NA	NA	NA	NA
WP_011861178.1\|1545170_1545701_-	signal peptidase I	NA	NA	NA	NA
WP_021361830.1\|1545740_1546550_-	undecaprenyl-diphosphate phosphatase	NA	NA	NA	NA
WP_009889110.1\|1546821_1547730_+\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_003438353.1\|1547873_1549319_+	adenylosuccinate lyase	NA	NA	NA	NA
WP_003419561.1\|1549629_1550082_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_011861179.1\|1550493_1552071_+	PTS transporter subunit EIIC	NA	NA	NA	NA
WP_009892977.1\|1552218_1552971_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA
WP_011861180.1\|1553109_1554450_+	6-phospho-alpha-glucosidase	NA	NA	NA	NA
WP_003438357.1\|1554561_1555758_-	pyridoxal phosphate-dependent aminotransferase	NA	NA	NA	NA
WP_003438360.1\|1556142_1557093_+	galactose-1-phosphate uridylyltransferase	NA	NA	NA	NA
WP_003438367.1\|1557252_1558005_+	exodeoxyribonuclease III	E3T4M6	Cafeteria_roenbergensis_virus	1.9e-57	45.6
WP_016729594.1\|1558096_1558873_-	exonuclease domain-containing protein	NA	NA	NA	NA
WP_003428202.1\|1559187_1561086_+	glutamine synthetase	NA	NA	NA	NA
WP_003438374.1\|1561213_1562335_-	galactosyldiacylglycerol synthase	NA	NA	NA	NA
WP_009889116.1\|1562533_1562866_+	PadR family transcriptional regulator	NA	NA	NA	NA
WP_011861182.1\|1562852_1563935_+	DUF1700 domain-containing protein	NA	NA	NA	NA
WP_011861183.1\|1563927_1564998_+	DUF4097 family beta strand repeat protein	NA	NA	NA	NA
WP_003428196.1\|1565099_1565636_+	lipoprotein	NA	NA	NA	NA
WP_009896245.1\|1565751_1566459_+	lantibiotic protection ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	1.2e-55	48.5
WP_009896246.1\|1566460_1567177_+	lantibiotic immunity ABC transporter MutE/EpiE family permease subunit	NA	NA	NA	NA
WP_011861184.1\|1567178_1567937_+	lantibiotic immunity ABC transporter MutG family permease subunit	NA	NA	NA	NA
WP_011861185.1\|1568071_1569460_+	two-component system sensor histidine kinase	NA	NA	NA	NA
WP_003428191.1\|1569535_1570357_-	pyridoxamine kinase	NA	NA	NA	NA
WP_021377403.1\|1570649_1571762_+	amidase domain-containing protein	NA	NA	NA	NA
WP_003419624.1\|1571944_1572145_+	cold-shock protein	A0A1W6JNX5	Morganella_phage	2.7e-16	66.2
WP_009889129.1\|1572565_1572994_+	CBS domain-containing protein	NA	NA	NA	NA
WP_009889131.1\|1573136_1573892_-	peptidylprolyl isomerase	NA	NA	NA	NA
WP_011861186.1\|1574592_1575099_-	hypothetical protein	A0A0A8WEK1	Clostridium_phage	1.5e-55	66.5
WP_003428185.1\|1575180_1575501_-	XRE family transcriptional regulator	A0A0A8WE28	Clostridium_phage	3.7e-23	54.5
WP_011861187.1\|1575669_1575867_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003428183.1\|1575971_1576412_+	hypothetical protein	A0A090EUN5	Clostridium_phage	6.0e-32	51.4
WP_009896258.1\|1576660_1577104_+	hypothetical protein	A0A1V0DZX9	Clostridioides_phage	1.3e-18	35.4
WP_011861188.1\|1577108_1578173_+\|portal	phage portal protein	A0A1V0DZX4	Clostridioides_phage	4.4e-97	53.1
WP_003419646.1\|1578186_1578615_+\|tail	phage tail tube protein	A0A1V0DZX1	Clostridioides_phage	2.8e-34	51.8
WP_009902432.1\|1578740_1579187_+\|portal	phage portal protein	A0A0A7RTP2	Clostridium_phage	1.1e-12	36.4
WP_003419648.1\|1579213_1579381_+	hypothetical protein	NA	NA	NA	NA
WP_003438437.1\|1579380_1581834_+	hypothetical protein	A0A1V0DZX3	Clostridioides_phage	6.1e-17	55.7
WP_003428168.1\|1581833_1582256_+	hypothetical protein	A0A090DBR9	Clostridium_phage	1.7e-52	71.1
WP_009889145.1\|1582537_1584067_+	cell wall XkdQ hydrolase	A0A1V0DZX6	Clostridioides_phage	1.0e-243	81.1
WP_003438447.1\|1584082_1584409_+	DUF2577 domain-containing protein	J9QE86	Clostridium_phage	1.0e-52	94.4
WP_003438449.1\|1584408_1584837_+	DUF2634 domain-containing protein	A0A0A8WJ32	Clostridium_phage	4.4e-64	82.4
WP_003438450.1\|1584829_1585882_+\|plate	baseplate J/gp47 family protein	A0A0A8WFP3	Clostridium_phage	2.7e-139	71.0
WP_003428156.1\|1585878_1586577_+	DUF2313 domain-containing protein	A0A090D815	Clostridium_phage	5.5e-48	56.9
WP_009902440.1\|1586577_1587564_+\|tail	phage tail protein	A0A2H4J039	uncultured_Caudovirales_phage	3.4e-59	45.8
WP_011861189.1\|1587585_1592817_+	chromosome condensation regulator	A0A0A8WEY5	Clostridium_phage	1.2e-81	31.1
WP_009902444.1\|1592833_1593187_+	hypothetical protein	A0A0A8WJF2	Clostridium_phage	9.4e-12	42.1
WP_003419670.1\|1593449_1593710_+	hypothetical protein	E2ELK7	Clostridium_phage	9.9e-35	90.6
WP_003419674.1\|1593917_1594373_-	hypothetical protein	NA	NA	NA	NA
WP_003438466.1\|1594600_1595020_-	helix-turn-helix transcriptional regulator	S5MUV6	Brevibacillus_phage	5.4e-06	37.2
WP_003428146.1\|1595318_1595528_+	helix-turn-helix transcriptional regulator	Q5YAA3	Bacillus_phage	5.9e-06	47.2
WP_009889160.1\|1595559_1595769_+	hypothetical protein	NA	NA	NA	NA
WP_003428144.1\|1595985_1596384_-	helix-turn-helix domain-containing protein	A0A1L2JY18	Aeribacillus_phage	2.7e-07	29.7
1597861:1597879	attR	NA	NA	NA	NA

DBSCAN-SWA_6

1676145 : 1685872

Pandoravirus(37.5%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011861216.1\|1676145_1676730_+	aminodeoxychorismate/anthranilate synthase component II	A0A0P0IKJ1	Acinetobacter_phage	8.4e-58	53.2
WP_021359151.1\|1676731_1678081_+	aminodeoxychorismate synthase component I	S4VNU7	Pandoravirus	6.5e-37	41.2
WP_003438634.1\|1678070_1678814_+	aminodeoxychorismate lyase	NA	NA	NA	NA
WP_009896367.1\|1678847_1679549_+	hypothetical protein	NA	NA	NA	NA
WP_003429416.1\|1679574_1680147_+	GTP cyclohydrolase I FolE	E7DN69	Pneumococcus_phage	3.0e-44	51.6
WP_021363468.1\|1680240_1681002_+	dihydropteroate synthase	A0A0B5J4J5	Pandoravirus	5.2e-23	28.5
WP_011861219.1\|1681012_1681378_+	dihydroneopterin aldolase	NA	NA	NA	NA
WP_003438641.1\|1681370_1681877_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	S4VNV0	Pandoravirus	1.2e-12	35.2
WP_003419887.1\|1681857_1682643_+	3-deoxy-7-phosphoheptulonate synthase	E3T537	Cafeteria_roenbergensis_virus	1.7e-13	27.9
WP_009896376.1\|1682897_1684688_+	DNA primase	A0A0K1LMQ9	Caulobacter_phage	1.2e-51	32.6
WP_003429425.1\|1684705_1685872_+	RNA polymerase sigma factor RpoD	M4SMP8	Cyanophage	9.6e-37	36.8

DBSCAN-SWA_7

3218876 : 3227829

Catovirus(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_009897930.1\|3218876_3220790_-	polysaccharide biosynthesis protein	A0A1V0SAI8	Catovirus	1.1e-26	29.8
WP_003431768.1\|3220873_3221965_-	glycosyltransferase	A0A1V0SL50	Klosneuvirus	1.8e-16	26.2
WP_011861675.1\|3221970_3223266_-	UDP-glucose/GDP-mannose dehydrogenase family protein	A0A127AXI2	Bacillus_phage	2.9e-90	43.6
WP_003426498.1\|3223291_3224044_-	glycosyltransferase family 2 protein	A0A1V0SAH6	Catovirus	4.6e-16	40.5
WP_004454111.1\|3224091_3225000_-	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_003422862.1\|3225021_3225771_-	glycosyltransferase family 2 protein	A0A1V0SAH6	Catovirus	1.2e-16	38.8
WP_009891031.1\|3225799_3226975_-	glycerophosphotransferase	NA	NA	NA	NA
WP_009897935.1\|3226989_3227829_-	glycosyltransferase family 2 protein	A0A2P1ELT8	Moumouvirus	7.0e-05	26.3

DBSCAN-SWA_8

3380277 : 3428859

Clostridium_phage(84.72%)

holin,plate,terminase,tail,portal,capsid

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011861731.1\|3380277_3380421_-	hypothetical protein	A0A0A8WJ06	Clostridium_phage	3.9e-17	100.0
WP_009898401.1\|3380678_3380867_+	hypothetical protein	A0A0A8WJ69	Clostridium_phage	3.1e-30	100.0
WP_011861732.1\|3381113_3381818_-	hypothetical protein	Q24LF8	Clostridium_phage	1.5e-69	98.5
WP_011861052.1\|3381819_3382251_-	hypothetical protein	Q24LG0	Clostridium_phage	1.9e-75	100.0
WP_011861051.1\|3382268_3382865_-	hypothetical protein	Q24LG1	Clostridium_phage	1.8e-95	99.5
WP_011861049.1\|3383377_3383674_-	hypothetical protein	Q24LG2	Clostridium_phage	7.3e-50	100.0
WP_011861048.1\|3383690_3384506_-	N-acetylmuramoyl-L-alanine amidase	Q24LG3	Clostridium_phage	2.4e-151	97.4
WP_011861047.1\|3384502_3384763_-\|holin	holin	A0A0K2SUI8	Clostridium_phage	3.2e-41	96.5
WP_011861046.1\|3384782_3385013_-	membrane protein	A0A0A8WJM3	Clostridium_phage	1.8e-32	100.0
WP_011861045.1\|3385047_3385230_-	hypothetical protein	A0A090D845	Clostridium_phage	1.0e-22	93.2
WP_011861044.1\|3385229_3385523_-	hypothetical protein	A0A0A8WIP3	Clostridium_phage	1.7e-46	94.8
WP_021413561.1\|3385539_3387237_-	glycine rich family protein	X5JAW3	Clostridium_phage	3.7e-231	82.5
WP_011861042.1\|3387254_3388058_-\|tail	phage tail protein	X5JAJ4	Clostridium_phage	3.4e-126	97.4
WP_011861041.1\|3388069_3388687_-	YmfQ family protein	A0A0A8WFE8	Clostridium_phage	1.0e-114	98.0
WP_011861040.1\|3388679_3389729_-\|plate	baseplate J/gp47 family protein	A0A0A8WFK0	Clostridium_phage	7.5e-190	97.1
WP_011861039.1\|3389729_3390149_-	DUF2634 domain-containing protein	X5JB38	Clostridium_phage	2.5e-72	97.8
WP_009901352.1\|3390153_3390414_-	DUF2577 domain-containing protein	A3QSB4	Clostridium_virus	1.7e-39	100.0
WP_011861038.1\|3390427_3392398_-	cell wall hydrolase	A0A0A8WIF2	Clostridium_phage	0.0e+00	86.5
WP_011861037.1\|3392390_3393080_-	LysM peptidoglycan-binding domain-containing protein	X5J9Z8	Clostridium_phage	4.1e-120	95.2
WP_011861036.1\|3393095_3395447_-	tape measure protein	X5JAB7	Clostridium_phage	3.1e-252	61.8
WP_011861035.1\|3395517_3396087_-	zinc-ribbon domain-containing protein	A0A0A8WFW4	Clostridium_phage	1.5e-27	37.4
WP_011861034.1\|3396130_3396691_-	lipoprotein	NA	NA	NA	NA
WP_003429855.1\|3398354_3398516_-	hypothetical protein	A0A0A8WE04	Clostridium_phage	1.2e-14	84.3
WP_003429853.1\|3398856_3399297_-\|portal	phage portal protein	X5JAB6	Clostridium_phage	8.6e-47	63.7
WP_003429851.1\|3399368_3399839_-\|tail	phage tail tube protein	A0A0A8WJ62	Clostridium_phage	7.0e-71	82.1
WP_011861032.1\|3399855_3401166_-	hypothetical protein	X5JAJ1	Clostridium_phage	9.9e-232	92.4
WP_011861031.1\|3401167_3401344_-	hypothetical protein	A0A0A8WFD8	Clostridium_phage	8.8e-19	86.2
WP_009901504.1\|3401336_3401774_-	hypothetical protein	A0A0A8WJT3	Clostridium_phage	1.1e-75	95.9
WP_011861030.1\|3401766_3402192_-	HK97 gp10 family phage protein	X5JB35	Clostridium_phage	3.6e-74	97.2
WP_003429844.1\|3402191_3402539_-	hypothetical protein	X5JAV9	Clostridium_phage	5.0e-58	100.0
WP_009888836.1\|3402532_3402934_-	hypothetical protein	X5JAJ0	Clostridium_phage	8.1e-68	97.0
WP_009896624.1\|3402943_3403177_-	hypothetical protein	A0A0A8WFD0	Clostridium_phage	1.4e-32	97.4
WP_011861029.1\|3403176_3404076_-\|capsid	phage capsid protein	A0A0A8WFI8	Clostridium_phage	1.4e-168	99.7
WP_011861028.1\|3404087_3404651_-	scaffold protein	X5JAB4	Clostridium_phage	1.0e-84	89.8
WP_009901430.1\|3404960_3405203_-	hypothetical protein	X5JAV8	Clostridium_phage	3.4e-37	100.0
WP_003429838.1\|3405168_3406662_-\|capsid	minor capsid protein	X5JAI9	Clostridium_phage	1.1e-284	96.8
WP_011861027.1\|3406651_3408091_-\|portal	phage portal protein	A0A0A8WFC0	Clostridium_phage	1.2e-278	99.6
WP_003433530.1\|3408096_3409350_-\|terminase	PBSX family phage terminase large subunit	X5JAB3	Clostridium_phage	3.0e-246	99.0
WP_011861025.1\|3409327_3410020_-	helix-turn-helix domain-containing protein	A0A0A8WFS6	Clostridium_phage	2.5e-117	94.3
WP_009894744.1\|3410089_3410317_-	hypothetical protein	A0A0A8WFZ2	Clostridium_phage	2.1e-36	100.0
WP_009894743.1\|3410440_3410758_+	hypothetical protein	A0A0A8WJ81	Clostridium_phage	5.2e-54	100.0
WP_009894742.1\|3410737_3410926_-	hypothetical protein	A0A0A8WIH0	Clostridium_phage	3.2e-27	100.0
WP_009894741.1\|3411002_3411614_-	hypothetical protein	A0A0A8WFI2	Clostridium_phage	6.9e-111	100.0
WP_009894739.1\|3411613_3411787_-	hypothetical protein	A0A0A8WJV0	Clostridium_phage	5.8e-23	100.0
WP_032506905.1\|3412605_3413769_-	ImmA/IrrE family metallo-endopeptidase	B6SBZ6	Clostridium_virus	1.2e-212	97.4
WP_011861735.1\|3413787_3414543_-	hypothetical protein	B6SBZ5	Clostridium_virus	4.3e-131	96.0
WP_011861022.1\|3414863_3415352_-	hypothetical protein	A0A090EUN5	Clostridium_phage	6.1e-86	100.0
WP_011861736.1\|3415445_3416186_-	anti-repressor protein	A0A090DCZ8	Clostridium_phage	7.9e-69	57.9
WP_011861737.1\|3416248_3416656_-	RusA family crossover junction endodeoxyribonuclease	A0A0A8WIA1	Clostridium_phage	5.1e-62	89.6
WP_011861738.1\|3416645_3417044_-	hypothetical protein	A0A0A8WEK3	Clostridium_phage	1.8e-51	75.0
WP_011861739.1\|3417186_3417513_-	peptide chain release factor-like protein	A0A090D894	Clostridium_phage	2.3e-52	94.7
WP_011861740.1\|3417583_3417955_-	hypothetical protein	A0A0A8WJ20	Clostridium_phage	2.2e-56	86.0
WP_011861741.1\|3417947_3418121_-	hypothetical protein	Q24LD3	Clostridium_phage	3.4e-23	86.0
WP_161807964.1\|3418129_3418450_-	DUF1653 domain-containing protein	NA	NA	NA	NA
WP_011861743.1\|3418524_3419520_-	nucleoid-associated protein	J9QE81	Clostridium_phage	9.1e-153	82.3
WP_011861744.1\|3419614_3419890_-	hypothetical protein	X5JAX1	Clostridium_phage	1.1e-44	100.0
WP_018112752.1\|3419941_3420100_-	hypothetical protein	NA	NA	NA	NA
WP_021359693.1\|3420218_3420392_-	DUF3797 domain-containing protein	Q24LE0	Clostridium_phage	9.2e-29	96.5
WP_021359694.1\|3420388_3420529_-	hypothetical protein	J9QE80	Clostridium_phage	2.7e-15	95.7
WP_011861745.1\|3420497_3420878_-	hypothetical protein	X5JAK1	Clostridium_phage	1.6e-57	92.1
WP_021398171.1\|3420881_3421247_-	hypothetical protein	Q24LE2	Clostridium_phage	7.1e-63	96.7
WP_011861747.1\|3421243_3421507_-	hypothetical protein	Q24LE3	Clostridium_phage	1.3e-42	97.7
WP_011861748.1\|3421580_3421997_-	single-stranded DNA-binding protein	A0A0A8WJ76	Clostridium_phage	1.9e-75	100.0
WP_011861749.1\|3422012_3422186_-	resolvase	A0A090EUJ6	Clostridium_phage	5.8e-23	100.0
WP_011861750.1\|3422245_3423196_-	DnaD domain protein	B6SBX9	Clostridium_virus	2.9e-156	95.9
WP_011861751.1\|3423204_3423795_-	essential recombination function protein	A0A0A8WJU6	Clostridium_phage	6.2e-101	98.4
WP_011861752.1\|3423804_3424314_-	siphovirus Gp157 family protein	A0A0A8WFY3	Clostridium_phage	1.1e-80	95.9
WP_011861753.1\|3424399_3424717_-	hypothetical protein	B6SBX6	Clostridium_virus	1.1e-24	100.0
WP_021391119.1\|3424816_3425044_-	hypothetical protein	B6SBX5	Clostridium_virus	2.1e-25	98.2
WP_011861755.1\|3425018_3425207_-	hypothetical protein	B6SBX4	Clostridium_virus	2.9e-28	100.0
WP_011861756.1\|3425272_3426067_-	ORF6N domain-containing protein	X5JAW6	Clostridium_phage	4.9e-133	92.7
WP_011861757.1\|3426114_3426336_-	helix-turn-helix transcriptional regulator	B6SBW9	Clostridium_virus	1.8e-32	100.0
WP_011861758.1\|3426489_3426945_+	helix-turn-helix transcriptional regulator	B6SBW8	Clostridium_virus	9.4e-81	100.0
WP_011861759.1\|3426962_3427436_+	ImmA/IrrE family metallo-endopeptidase	B6SBW7	Clostridium_virus	1.1e-84	100.0
WP_011861760.1\|3427500_3428859_+	recombinase family protein	B6SBW6	Clostridium_virus	1.6e-213	100.0

DBSCAN-SWA_9

3897501 : 3916340

Streptococcus_phage(78.57%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011861915.1\|3897501_3898410_-	conjugal transfer protein	A0A1S5SF22	Streptococcus_phage	1.4e-112	66.4
WP_011861916.1\|3898426_3899431_-	peptidase P60	A0A1S5SEZ8	Streptococcus_phage	2.0e-139	80.2
WP_044337411.1\|3899427_3901791_-	membrane protein	A0A1S5SF30	Streptococcus_phage	3.2e-220	76.3
WP_011861918.1\|3901805_3904259_-	ATP-binding protein	A0A1S5SF64	Streptococcus_phage	0.0e+00	87.5
WP_005427021.1\|3904242_3904635_-	conjugal transfer protein	A0A1S5SEX7	Streptococcus_phage	1.2e-55	80.0
WP_029677135.1\|3904724_3905213_-	antirestriction protein ArdA	A0A1S5SF25	Streptococcus_phage	3.7e-67	73.9
WP_022621533.1\|3905665_3905809_+	hypothetical protein	NA	NA	NA	NA
WP_011861920.1\|3905805_3906312_-\|transposase	transposase	NA	NA	NA	NA
WP_002570387.1\|3906497_3906719_-	hypothetical protein	A0A1S5SEY0	Streptococcus_phage	1.4e-29	90.4
WP_044336937.1\|3906770_3907994_-	helix-turn-helix domain-containing protein	A0A1S5SEX3	Streptococcus_phage	8.2e-188	78.5
WP_011861922.1\|3908145_3909543_-	DUF87 domain-containing protein	A0A1S5SFB5	Streptococcus_phage	3.8e-205	76.8
WP_011861923.1\|3909578_3909956_-	YdcP family protein	A0A1S5SF96	Streptococcus_phage	1.8e-48	80.5
WP_002578441.1\|3909977_3910292_-	YdcP family protein	A0A1S5SF38	Streptococcus_phage	1.7e-49	91.3
WP_011861924.1\|3910548_3911223_+	hypothetical protein	NA	NA	NA	NA
WP_011861925.1\|3911223_3912117_+	MBL fold metallo-hydrolase	NA	NA	NA	NA
WP_011861926.1\|3912315_3914301_-	collagen-like exosporium glycoprotein BclA3	A0A285PXU9	Cedratvirus	4.5e-42	67.1
WP_009898508.1\|3914367_3915444_-	glycosyltransferase family 2 protein	A0A1V0SAJ8	Catovirus	1.3e-16	25.3
WP_003436212.1\|3915755_3916340_-	ATP-dependent Clp endopeptidase proteolytic subunit ClpP	A0A223W000	Agrobacterium_phage	3.6e-48	51.3

DBSCAN-SWA_10

3954968 : 3963961

Streptococcus_phage(100.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011861947.1\|3954968_3957419_-	ATP-binding protein	A0A1S5SF64	Streptococcus_phage	0.0e+00	76.0
WP_011861948.1\|3957396_3957795_-	conjugal transfer protein	A0A1S5SEX7	Streptococcus_phage	2.4e-48	73.0
WP_011861949.1\|3957912_3958416_-	antirestriction protein ArdA	A0A1S5SF25	Streptococcus_phage	3.7e-54	59.6
WP_011861950.1\|3958433_3958937_-	antirestriction protein	NA	NA	NA	NA
WP_011861951.1\|3958855_3959152_-	conjugal transfer protein	NA	NA	NA	NA
WP_011861952.1\|3959234_3960044_-\|transposase	transposase	NA	NA	NA	NA
WP_009265886.1\|3960082_3960304_-	hypothetical protein	A0A1S5SEY0	Streptococcus_phage	1.2e-28	87.7
WP_011861953.1\|3960450_3961641_-	XRE family transcriptional regulator	A0A1S5SEX3	Streptococcus_phage	1.1e-149	63.1
WP_011861954.1\|3961824_3963219_-	cell division protein FtsK	A0A1S5SFB5	Streptococcus_phage	4.6e-179	65.9
WP_011861955.1\|3963235_3963619_-	YdcP family protein	A0A1S5SF96	Streptococcus_phage	1.2e-31	55.1
WP_011861956.1\|3963634_3963961_-	YdcP family protein	A0A1S5SF38	Streptococcus_phage	3.6e-26	53.4

Anti-CRISPR protein detection

Acr_ID: NC_009089.1|WP_011860989.1|1095403_1095604_+|hypothetical-protein

Click the colored protein region to show detailed information

Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NC_009089.1|WP_011860989.1|1095403_1095604_+|hypothetical-protein

1095403_1095604_+

66 aa aa

1088174-1143688

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location	Mismatch
NC_009089_8	TypeV	8.2\|1756373\|36\|NC_009089\|PILER-CR,CRISPRCasFinder,CRT	1756373-1756408	36	1103665-1103700	0

1. spacer 8.2|1756373|36|NC_009089|PILER-CR,CRISPRCasFinder,CRT matches to NC_009089 position: 1103665-1103700, mismatch: 0

atgttcacattgacagctcaagataaacatggaatt	CRISPR spacer
atgttcacattgacagctcaagataaacatggaatt	Protospacer
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