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_012438	Sulfurihydrogenibium azorense Az-Fu1, complete sequence	17 crisprs	csa3,cas14k,c2c10_CAS-V-U3,cas3,Cas14b_CAS-V-F,cas14i,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,cmr3gr5,cmr5gr11,cmr4gr7,cas10,cmr6gr7,cas8b1,Cas14u_CAS-V,DEDDh,csm2gr11,csm3gr7,csm4gr5,csm5gr7	0	9	5	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_012438_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_1

235671-236745

Orphan

Consensus_repeat	Method
GTTTTCTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRT

16 spacers

The CRISPR arrays of NC_012438_1

>merge|NC_012438|1|235671-236745|PILER-CR,CRISPRCasFinder,CRT
GTTTTCTCCCGACTATGAGGGAATTGAAGGAACAGTTAACTGGGTGGCTTCTAGAAAGACTGGACGTTTTCTCCCGACTATGAGGGAATTGAAGGTTCTTGTCTCTTTCTGCATACTGATATTTAGCTAGGTTTTCTCCCGACTATGAGGGAATTGAAGAAAATCAAATTTAAGTAGTGTTTTCAAACGTTTCACGTTTTCTCCCGACTATGAGGGAATTGAAGTCACTATTTTCTGGAATAAGTACATTCCATGATGCCGTTTTCTCCCGACTATGAGGGAATTGAAGTTTAAAAAAGCTGTGGGGTATTAAATATGAAAGATGGTTTTCTCCCGACTATGAGGGAATTGAAGGTGAATTTTTATTTTTGTAGATGAAGTTTCAATGAATGTTTTCTCCCGACTATGAGGGAATTGAAGATGCAAGTACTCTGTGAGACAGGTTTAGTAACATCTGTTTTCTCCCGACTATGAGGGAATTGAAGGGAAAACAAACAGACGAATTTGGAGGATACCAACCAGTTTTCTCCCGACTATGAGGGAATTGAAGATAGTTCATAAAATTCATCATTTCTTATTGTATAATAGTTTTCTCCCGACTATGAGGGAATTGAAGTTCTGAATCACAGTAATCAATGTAGTGAGTTGTTAAGTTTTCTCCCGACTATGAGGGAATTGAAGCTTTAACCATGATACATCCTCCTTTTAAAATTTTTTGGTTTTCTCCCGACTATGAGGGAATTGAAGTTTACTGTTATCATGTTACACCTCCAAAAAATTTTTGTTTTCTCCCGACTATGAGGGAATTGAAGAACATTATTCATAAAACATTCAAAGGTTGGCACGCGGTTTTCTCCCGACTATGAGGGAATTGAAGCTGTATATCTGATGATAGGTTATCGAACTCATTATTCGTTTTCTCCCGACTATGAGGGAATTGAAGCTTCTATTTCTCTTAAACTTAACCAGATCGGATCTTGTTTTCTCCCGACTATGAGGGAATTGAAGAGTGTAGACTTTGATACAAAAATAGACACTCCAAAAAGTTTTCTCCCGACTATGAGGGAATTGAAGA

>NC_012438|1|1|235671-236678|PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	GAACAGTTAACTGGGTGGCTTCTAGAAAGACTGGAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTTCTTGTCTCTTTCTGCATACTGATATTTAGCTAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAATCAAATTTAAGTAGTGTTTTCAAACGTTTCAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCACTATTTTCTGGAATAAGTACATTCCATGATGCC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTAAAAAAGCTGTGGGGTATTAAATATGAAAGATG
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTGAATTTTTATTTTTGTAGATGAAGTTTCAATGAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATGCAAGTACTCTGTGAGACAGGTTTAGTAACATCT
GTTTTCTCCCGACTATGAGGGAATTGAAG	GGAAAACAAACAGACGAATTTGGAGGATACCAACCA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGTTCATAAAATTCATCATTTCTTATTGTATAATA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTGAATCACAGTAATCAATGTAGTGAGTTGTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTAACCATGATACATCCTCCTTTTAAAATTTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTACTGTTATCATGTTACACCTCCAAAAAATTTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	AACATTATTCATAAAACATTCAAAGGTTGGCACGCG
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTGTATATCTGATGATAGGTTATCGAACTCATTATTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCTATTTCTCTTAAACTTAACCAGATCGGATCTT
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|1|1|235671-236745|CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	GAACAGTTAACTGGGTGGCTTCTAGAAAGACTGGAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTTCTTGTCTCTTTCTGCATACTGATATTTAGCTAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAATCAAATTTAAGTAGTGTTTTCAAACGTTTCAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCACTATTTTCTGGAATAAGTACATTCCATGATGCC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTAAAAAAGCTGTGGGGTATTAAATATGAAAGATG
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTGAATTTTTATTTTTGTAGATGAAGTTTCAATGAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATGCAAGTACTCTGTGAGACAGGTTTAGTAACATCT
GTTTTCTCCCGACTATGAGGGAATTGAAG	GGAAAACAAACAGACGAATTTGGAGGATACCAACCA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGTTCATAAAATTCATCATTTCTTATTGTATAATA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTGAATCACAGTAATCAATGTAGTGAGTTGTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTAACCATGATACATCCTCCTTTTAAAATTTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTACTGTTATCATGTTACACCTCCAAAAAATTTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	AACATTATTCATAAAACATTCAAAGGTTGGCACGCG
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTGTATATCTGATGATAGGTTATCGAACTCATTATTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCTATTTCTCTTAAACTTAACCAGATCGGATCTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	AGTGTAGACTTTGATACAAAAATAGACACTCCAAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAGA

>NC_012438|1|1|235671-236744|CRT
GTTTTCTCCCGACTATGAGGGAATTGAAG	GAACAGTTAACTGGGTGGCTTCTAGAAAGACTGGAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTTCTTGTCTCTTTCTGCATACTGATATTTAGCTAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAATCAAATTTAAGTAGTGTTTTCAAACGTTTCAC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCACTATTTTCTGGAATAAGTACATTCCATGATGCC
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTAAAAAAGCTGTGGGGTATTAAATATGAAAGATG
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTGAATTTTTATTTTTGTAGATGAAGTTTCAATGAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATGCAAGTACTCTGTGAGACAGGTTTAGTAACATCT
GTTTTCTCCCGACTATGAGGGAATTGAAG	GGAAAACAAACAGACGAATTTGGAGGATACCAACCA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGTTCATAAAATTCATCATTTCTTATTGTATAATA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTGAATCACAGTAATCAATGTAGTGAGTTGTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTAACCATGATACATCCTCCTTTTAAAATTTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TTTACTGTTATCATGTTACACCTCCAAAAAATTTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	AACATTATTCATAAAACATTCAAAGGTTGGCACGCG
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTGTATATCTGATGATAGGTTATCGAACTCATTATTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCTATTTCTCTTAAACTTAACCAGATCGGATCTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	AGTGTAGACTTTGATACAAAAATAGACACTCCAAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674807.1\|230580_231501_+\|DNA-polymerase-III-subunit-delta'	unknown	unknown	gnl\|CDD\|273213
NC_012438.1\|WP_012674776.1\|245286_246360_-\|3-isopropylmalate-dehydrogenase	unknown	unknown	gnl\|CDD\|234832
NC_012438.1\|WP_012673589.1\|229206_229431_+\|UPF0175-family-protein	unknown	unknown	gnl\|CDD\|377095
NC_012438.1\|WP_012674286.1\|234122_234953_-\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|223890
NC_012438.1\|WP_012674180.1\|241280_242435_-\|SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|224481
NC_012438.1\|WP_012674693.1\|246361_247201_-\|carboxylating-nicotinate-nucleotide-diphosphorylase	unknown	unknown	gnl\|CDD\|238806
NC_012438.1\|WP_012673774.1\|229969_230584_+\|dTMP-kinase	unknown	unknown	gnl\|CDD\|234814
NC_012438.1\|WP_012673552.1\|235011_235263_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674778.1\|242434_243127_-\|NADH-quinone-oxidoreductase-subunit-I	unknown	unknown	gnl\|CDD\|235637
NC_012438.1\|WP_012674598.1\|240911_241280_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674269.1\|243478_245212_-\|NADH-quinone-oxidoreductase-subunit-D	unknown	unknown	gnl\|CDD\|223722
NC_012438.1\|WP_012674537.1\|229423_229906_+\|DUF3368-domain-containing-protein	unknown	unknown	gnl\|CDD\|225269
NC_012438.1\|WP_012674039.1\|247693_248347_+\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_012438.1\|WP_012674856.1\|233557_234016_+\|PIN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350244
NC_012438.1\|WP_012674016.1\|233367_233568_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673795.1\|247208_247637_-\|protoporphyrinogen-oxidase-HemJ	unknown	unknown	gnl\|CDD\|367596
NC_012438.1\|WP_012674047.1\|237479_240911_+\|reverse-gyrase	unknown	unknown	gnl\|CDD\|236498
NC_012438.1\|WP_012673641.1\|243128_243479_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226400
NC_012438.1\|WP_012674650.1\|232328_233285_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	unknown	unknown	gnl\|CDD\|182814
NC_012438.1\|WP_012673868.1\|231511_232348_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224688

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674039.1\|247693_248347_+\|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].	3.00818e-56
NC_012438.1\|WP_012673589.1\|229206_229431_+\|UPF0175-family-protein	gnl\|CDD\|377095	pfam03683, UPF0175, Uncharacterized protein family (UPF0175). This family contains small proteins of unknown function.	1.57252e-18
NC_012438.1\|WP_012674286.1\|234122_234953_-\|radical-SAM-protein	gnl\|CDD\|223890	COG0820, COG0820, Predicted Fe-S-cluster redox enzyme [General function prediction only].	4.35659e-55
NC_012438.1\|WP_012674180.1\|241280_242435_-\|SAM-dependent-methyltransferase	gnl\|CDD\|224481	COG1565, COG1565, Uncharacterized conserved protein [Function unknown].	1.17047e-97
NC_012438.1\|WP_012674693.1\|246361_247201_-\|carboxylating-nicotinate-nucleotide-diphosphorylase	gnl\|CDD\|238806	cd01572, QPRTase, Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.	5.34428e-140
NC_012438.1\|WP_012674807.1\|230580_231501_+\|DNA-polymerase-III-subunit-delta'	gnl\|CDD\|273213	TIGR00678, DNA_polymerase_III_subunit_delta', DNA polymerase III, delta' subunit. This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau. [DNA metabolism, DNA replication, recombination, and repair].	1.3673e-52
NC_012438.1\|WP_012674776.1\|245286_246360_-\|3-isopropylmalate-dehydrogenase	gnl\|CDD\|234832	PRK00772, PRK00772, 3-isopropylmalate dehydrogenase; Provisional.	0
NC_012438.1\|WP_012674778.1\|242434_243127_-\|NADH-quinone-oxidoreductase-subunit-I	gnl\|CDD\|235637	PRK05888, PRK05888, NADH-quinone oxidoreductase subunit NuoI.	3.39204e-44
NC_012438.1\|WP_012674269.1\|243478_245212_-\|NADH-quinone-oxidoreductase-subunit-D	gnl\|CDD\|223722	COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion].	0
NC_012438.1\|WP_012674537.1\|229423_229906_+\|DUF3368-domain-containing-protein	gnl\|CDD\|225269	COG2405, COG2405, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only].	4.66057e-39
NC_012438.1\|WP_012674650.1\|232328_233285_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	gnl\|CDD\|182814	PRK10892, PRK10892, arabinose-5-phosphate isomerase KdsD.	8.9395e-123
NC_012438.1\|WP_012674856.1\|233557_234016_+\|PIN-domain-containing-protein	gnl\|CDD\|350244	cd18677, PIN_MjVapC2-VapC6_like, VapC-like PIN domain of Methanocaldococcus jannaschii VapC2, and VapC6, and related proteins. This subfamily includes Methanocaldococcus jannaschii VapC2 and VapC6. It belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	3.5822e-48
NC_012438.1\|WP_012673795.1\|247208_247637_-\|protoporphyrinogen-oxidase-HemJ	gnl\|CDD\|367596	pfam03653, UPF0093, Uncharacterized protein family (UPF0093).	5.35675e-56
NC_012438.1\|WP_012674047.1\|237479_240911_+\|reverse-gyrase	gnl\|CDD\|236498	PRK09401, PRK09401, reverse gyrase; Reviewed.	0
NC_012438.1\|WP_012673641.1\|243128_243479_-\|hypothetical-protein	gnl\|CDD\|226400	COG3883, COG3883, Uncharacterized protein conserved in bacteria [Function unknown].	0.000217664
NC_012438.1\|WP_012673774.1\|229969_230584_+\|dTMP-kinase	gnl\|CDD\|234814	PRK00698, tmk, thymidylate kinase; Validated.	3.7213e-81
NC_012438.1\|WP_012673868.1\|231511_232348_+\|hypothetical-protein	gnl\|CDD\|224688	COG1774, COG1774, Uncharacterized homolog of PSP1 [Function unknown].	6.10756e-49

>NC_012438.1|WP_012673552.1|235011_235263_+|hypothetical-protein
MNIKEIKELAKKFTPQQIEQCINEALQHGKPLTEGCNPSGDIVEVLNTLAKAQTVRELIEKGMTETEAIRELARRIREIQSVK
>NC_012438.1|WP_012674286.1|234122_234953_-|radical-SAM-protein
MEVVKIINDDLNTLFEIKTDDGYTIESVHYRKTLCVSSQVGCSIKCSFCASGLNGLTRNLSFDEIINQYLMVKDKGYEIESIAFAGIGEPLLNWENVKQAFDYFKSQGLSVSFYTTGFPISNFKQLLALNHDGVNLSLHSVFEEKRKSLIPNSHTISQLIQVFKDHLQQLSNRKKKLYNIAYILIYGENDSYEEIDKLGEIAKELGIGVSLLKYNEIEFFPYKSVPDDRYEELFLRLREKGIRVTLSNKYRTRKIGGCGTLMVNRLELHKLNFTIF
>NC_012438.1|WP_012674856.1|233557_234016_+|PIN-domain-containing-protein
MNNKIFIDSSIFIETFKGNTAAKEILEVAIDNFDVFINSIVFSEVIFKLIVLKSGKSILTIKNQKNLISSLMKELESYSELLLLFNVLEENKEILDISLKLMEKYDLLTNDALILATCKYYEIDKIASLDTDFEKATTNENIKLIRNVNDLK
>NC_012438.1|WP_012674016.1|233367_233568_+|hypothetical-protein
MGKVIIETKDNGELKIKTSLTLEQIKNLIEGIEKKEKAKKLLNATFNTLKENRELEIKSELEWYEQ
>NC_012438.1|WP_012674650.1|232328_233285_+|KpsF/GutQ-family-sugar-phosphate-isomerase
MDVQIIDLGKQTIEEEIRALNRLKECLDESFEKAVKLILEAQGKVIITGMGKSGLIGKKIAATMSSTGTPAFFLHPAEALHGDLGMVEKKDLIIAISNSGETPELLAIIPILKRWGNKIIAITNKRDSSLTKYADVSLYLNVDKEACPLNLAPTSSSTATLVLGDALAVALLRLRNFTPENFAMFHPGGSLGKKLMKVADIMRKDLPIVCEDTPLKEAVIVMSEKGLGSTLVLDKDNNLTGIITDGDLRRFINKGKSIDNSLSKDAMTKNPKTASPDWLVLQALELMERHNITVLPVVEDKKPVGIIHIHDILKSGVI
>NC_012438.1|WP_012673868.1|231511_232348_+|hypothetical-protein
MDNIKPVRIRFLDTNKFSEVIVPTSIKKGDFIVIESEKGHELVLVMGNCVYTDDTKNYQFIRKATKEDIVIFDKHEEEAQEFLNICKEESEKLGLKMNLLKSYIPLNRTKALFYYTAENRVDFRELVKIMAKRIKMRIEMRQVGVRDGVQIAGAVGVCGHQCCCNLFLDKFENISVEILTEQNLPPTPTKFTGVCGRLMCCLTFEKETYSIKNDLPEIESVIEIEGKPYTVKMYDFIGEKVIVADEEGNLRDITFTQLESMNLLKPKGCGSCNGCANH
>NC_012438.1|WP_012674807.1|230580_231501_+|DNA-polymerase-III-subunit-delta'
MKVIGHQKEIELIKKYLSKNYDSLSLLYEGKDCIGKKLIAFLTARGFLCEKKQGLGCGECHDCKLVNNLISNVYNKENLTPHPNIKFIPYEGKEIKIDQIREAISFLTLKSDKGKVLIIEKAENMNTESANALLKTLEEPPLNTLIILTTSNQNQLLPTIVSRLKKIRFRKLSEEEVRDILRLKISDEKKVENLSKISGGSLCLPFSIINKENVYNLAHSYYELIKTKKHQEGLFSITPIVDKFDSDDTNLFFDIILRFFEQDLQSGKVDNNFAESFISEFKKAKGAVLRGVKKKLVLEGMYYNLK
>NC_012438.1|WP_012673774.1|229969_230584_+|dTMP-kinase
MGVFITFEGIEGSGKSTQAKRLYEYLTNIGIKAYLTREPGGTSIGKKIREILLSHWEENFPSIAELLLYQADRNIHVNNIIKPLLQQDYIVISDRFYDSTTAYQHYARGIDYSIVDYLNKLATEGIKPHITFLLDLPVQEAFKRLNREKDRLESEGLNFHQKVREGFLKIADMEKDRVIVLDGLKSPDEIFNQILNILKERKIL
>NC_012438.1|WP_012674537.1|229423_229906_+|DUF3368-domain-containing-protein
MRKVVSNTTPILSFIKLNRIDILEKIYERILIPEAVFGEIQEGKNKYYIDISKEPWIEILKVENRKILEQLEKELDKGEAEAIALSLELPADLLLIDEKLGRRIAEEKGIKISGTIGILIKAKKQGIIKEVKPFIYELIEKGNYYEESFIKLILQHTGEM
>NC_012438.1|WP_012673589.1|229206_229431_+|UPF0175-family-protein
MKIVINLPDELKLKEEEVKTAAIVKLYELGKISSGKAAKLLGISRIEFLDLLGKYKVQISPDTEEELIKDIENA
>NC_012438.1|WP_012674047.1|237479_240911_+|reverse-gyrase
MIYAIFEKLCPNCHGEISSYRLEKGLPCKKCLPDEDLDVCQHVKPGDIKQLCHLQDTLQTWQEHFQTYIKSKPWNLQNTWAKRVFLKHSFVLLAPTGIGKTSFGISMASFLAKQGKKSYILLPTKLLVKQVYEKVKNFGVDKKDILAIGLEKSNKEKEENKERLKNADFKILITTSMFLYKNFEIYPRDFEFIFVDDVDSFVKTAKNIDKALYLLGFTQEDIEKALILIKLKAKPNKTQEDWDKINQLTEYLQKQRKKITGVLIVSSATSKPRSNRVKLFRELLGFEISSPTFYLRNIVDSYDEEYSFEKLLYWINKLGKGGLVFIPSDKGKEFVDEVVEKLNKHKIKAVSYEELDDKNLKKFEEGKIQVLVGISSYRNPLARGLDLPHVIRYALFYGVPKISISLKLEENLSHMLWALTSIRSYVIKKFPEITIKINQWITQLQKYQNLTLDFIQNNPQLKEKIENLQKEIRDFFQRPEVLEVLKSSDEIVLKQKEDGYYLIVSDATGYLQASGRTSRLYAGGITKGLSLILIDEKSAFKHLNKRVKWFSEEIEFVNINQVNLDQLIKQIDEDREKVRNFLTNSTKTISSSDLLKPTLIIVESPTKAKTIANFFGKPVRRKINQTEVLETSTEGRYLMITASLGHILDLVKNIAYHGVIVEDKEIIPIYETIEGKEETVENLRRLAIENMEILLGTDPDAEGEKISWDLQDLLKPILKNIKRIEFHEVTKKAITKAINDPRDINENLVKAQIVRRVADRWVGFEYSQLLQKEFQKNWLSAGRVQTPVLGWIIKRQQEASKKIYVINVSIPVEDKKFSFEITFETKEEAEKFYQNLKEVEVVVEKRYEEVENPPPPYRTDTLLKDASDKFRFTLPQTMDLAQTLFELGYITYHRTDSIRVSDAGIYLAKEIITQEFGENYFKPRVWGEGGAHECIRPTKNITPEDLESLMLSKQIEGLSYNHIKLYKLIFNRFIASQMIPVKVEMADIVIKALNFEIKETIKTKVLQDGWNLVLGIETRPLIEGKIDVQEYKNLLQRPKAYLYTHGEIVKEMKEKGIGRPSTYATIIAKLLERGYVIERKGFLIPTNLGKTVYNFLTNKPNLKEFLSEEFTRKLEEIMDKVEEGKEDYITVLKDLFVKVRKIS
>NC_012438.1|WP_012674598.1|240911_241280_-|hypothetical-protein
MLYNFIVAFSFLLIATFSYWYSSKLANYKKTSFFMSFFVVLIPYTLSGGLKLLTEKFISHYSLLVMFLALIILQTYFGKLIFKEDLKKTLIASLLGLIVTVIIGLPILVLSGIAITYLNLKQ
>NC_012438.1|WP_012674180.1|241280_242435_-|SAM-dependent-methyltransferase
MKLSGKKELIDIVLNDIKKRGGISFKDFMDYALYYPSLGYYTCDKEKIGGYGDFFTSSELDPVFGQLLAKQFNEIYLNYFKGKKIKLVELGSGKGVLAFDILNEIKTNYPEFYENLEFISVEKSPFHIQHQQKVLNGFNVKWLESIEDLEDIEGIVYSNELFDALPVHLIKKKNGKIYEIYLNEKDGEIVEELREISEDVLTYIKELKIDIPEGMTTEVNLLAKDLIQTIGQKLKKGFVFTVDYGYPSKELYKPYRMKGTLLCYYKHTYNENFYENIGFQDITSHVNFSALVYYGKKAGLEFTGFTDQAHFLINLGLGDIMIQLQEKGDSKSFERINRLKTLILPKGMGEKFKILIQHKNIKNPILSGLKIIPPQNDRYKIEEI
>NC_012438.1|WP_012674778.1|242434_243127_-|NADH-quinone-oxidoreductase-subunit-I
MGIKKVGAKPQTLVEKIFFLDFIKGLKTTIKHLWKKVITVDFPYEVVTPPPRFRGVHGLRTVDGTENPEFDSWVKRLKIKPPEPGETRCIACKFCQAACPVPELFDIQSEKLDVPEGHPHYGLKVMTVFNMDLSKCTFCGLCTQACPTDCIIMTDIYDLSSYTRRSWVLDKDMLTQIANDFVARRGKEKFDEKSQWREDQKLWPEYDRTREKLWDFNMPKLGLNYHDQTA
>NC_012438.1|WP_012673641.1|243128_243479_-|hypothetical-protein
MKILRAVFILIICLPFYVKADSFTEKDKELLINLSMQLSELKARLEEIDKRLGQVDKRIDSTDKRIDSVEKRIDQIDKKIDQLYTFLWIITGIFTTLTATTIGFALWDRRTYLKEA
>NC_012438.1|WP_012674269.1|243478_245212_-|NADH-quinone-oxidoreductase-subunit-D
MSWISVEKAKKLEERFGYPKVSQDKSGVVSVEVPKDKFIEFLKFLKEDKEYDFRMFLDLTIIDHGEKEDPRFQGVVILFSPTYQHRIIVKTWALDETLPTLTNLWKGAKWAEREAWDMFGIKFEGHENLVRMLLWETYPYHPLRKDFPLEGIKDTYLPSLNETLRGDSLEGLFNYDRMHTAIPTMEDLEITQKKRMPVKTSQIVLNWGPLHPGTHGTIWFLFDLDGEYVKQCDIIIGQLHRGVEKLGENVNWQQFIPYTDRMDYIAAINENHAYVLAAEKLLGIEIPEKAKWIRTMMAELSRINSHLLWLGTYALDLGALTMFLYTFREREKIMDIIEGISGARFTINYFRIGGVFADLPYGALDAIEHLIKDLPERINDYETLLTRNRIWLSRNKDVCIITEEDVYEYGLTGAVARGSGVPYDVRKIDKYDAYGEVEFDIPVGETGDSYDRYLVRMEEMRQSIRIIEQCVAKLRRMSKNDPYFFQTPDEKKLKVTIDGRGMKLPAGEVYASSDNPRGELGFYIYNKKDGLKAHRMRIRSGAFYNLQVFTKAIIGRPIADAITLLSTIDPVVGETDR
>NC_012438.1|WP_012674776.1|245286_246360_-|3-isopropylmalate-dehydrogenase
MKKHFKIAVLPGDGIGPEIIESALKVLDVISKKYGITFEYKHGLVGGAAIDETGDPLPPETLKICKESDAVLFGAVGGEKWDNLPTDKRPEKGLLRIRKELELFANIRPAKAYAPLLSSSPLKEEVIKGVDLVVLRELTGDVYFGEPRGREVRNGERVGYNTMIYYEHEIKRIAKVAFEMARNRRKKVTSVDKANVLEVSGLWREVVNEVHADYLDVDLEHMYVDNCAMQLIRRPKDFDVIVTGNIFGDIISDEAGALTGSLGMLPSASIGERYAFYEPIHGSAPDIAGKGIANPIATILSAAMMLEITCKLPQAARDIEKAVEKVLEDDYRTADIWSPGTKKVNTAEMTEEIIKRL
>NC_012438.1|WP_012674693.1|246361_247201_-|carboxylating-nicotinate-nucleotide-diphosphorylase
MLDRVFVRRKILEFLEEDIGYRDLTTDSLDVDKNVEGFFIAKQSGVVAGTVFVKEVFNVFGDVSFQSFKKEGDYIEKGEIIGLVYGNCKSILKGERVALNILQRLSGIATLTNLFIKELEGTKTKLLDTRKTTPGFRAFEKYAVKVGGGENHRFALYDMVMLKDNHIALVGSIKEAVKQVKSKVSPIVKVEVEVSNFDQLYEALETEADIIMLDNMTPTQVKEAVEIINGKKLVEVSGNITLENIKQYALSNPDFVSTGSVIHSAKWLDISLKLNTGGV
>NC_012438.1|WP_012673795.1|247208_247637_-|protoporphyrinogen-oxidase-HemJ
MYIWLKVIHIIFMVSWMAVLFYLPRLFVYHAENKDNKGFVQVVKVMEKKLFYFIGIPAFVLTVVSGLGMIALNLSLLTSGGWLHAKIVLVILLTAFFFHNEYVRRKFLKDQCSKSGKFFRMYNEIPTIILILIVILVIVKPF
>NC_012438.1|WP_012674039.1|247693_248347_+|response-regulator-transcription-factor
MRVLLVEDDLVLGESLKEYLEENQVEVVWISDDRKLDEALQMNEYDVIVLDLILKYEKGESILKGLRDKGVKTPVIIITAKNKIEDKETCFNFGADDYLTKPFNPKELLLRIKALSKRVHIPNKYKIKDVEIDLENQIVLKEGKEVKLSKTGWNLLALLLKRKGQVVSTEIILNYVWPDKAVGDEIVRQYIKELRKILPPDSIETHKGIGYRLKDEV

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Crispr_ID: NC_012438_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_2

236819-237391

Orphan

Consensus_repeat	Method
GTTTTCTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRT

8 spacers

The CRISPR arrays of NC_012438_2

>merge|NC_012438|2|236819-237391|PILER-CR,CRISPRCasFinder,CRT
GTTTTCTCCCGACTATGAGGGAATTGAAGGTATAAATCGAATCGTACGAACTATCGTAAAAATTGAAGTTTTCTCCCGACTATGAGGGAATTGAAGATTTCTAACTCTACATAGTGAACATCAAGAAATTTAAGTTTTCTCCCGACTATGAGGGAATTGAAGTCGCTTTTTGACATTTTTTAATTCTCGGTACCAGCGTACTTTTATTTTCTCTGGTTTTCTCCCGACTATGAGGGAATTGAAGATATCAAGATGTTATCAATCGGATAGGTCAAATAGGTTGTTTTCTCCCGACTATGAGGGAATTGAAGCTCTAATTGTCACTTGAGAATAGCATGTGAGCAAATGTTTTCTCCCGACTATGAGGGAATTGAAGTGCCATCAATATTAAGAATTTCTGTCCATCTTTTTTCGTTTTCTCCCGACTATGAGGGAATTGAAGCTCGTCAAATTCCTGGTTTATTATTCTATGATTTTTGGTTTTCTCCCGACTATGAGGGAATTGAAGTCTACCACTCTTTTTTGTAACAATAGCTTTGTCATAGTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|2|2|236819-237391|PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTATAAATCGAATCGTACGAACTATCGTAAAAATTGAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATTTCTAACTCTACATAGTGAACATCAAGAAATTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGCTTTTTGACATTTTTTAATTCTCGGTACCAGCGTACTTTTATTTTCTCTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATATCAAGATGTTATCAATCGGATAGGTCAAATAGGTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCTAATTGTCACTTGAGAATAGCATGTGAGCAAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	TGCCATCAATATTAAGAATTTCTGTCCATCTTTTTTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCGTCAAATTCCTGGTTTATTATTCTATGATTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCTACCACTCTTTTTTGTAACAATAGCTTTGTCATA
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|2|2|236819-237391|CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTATAAATCGAATCGTACGAACTATCGTAAAAATTGAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATTTCTAACTCTACATAGTGAACATCAAGAAATTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGCTTTTTGACATTTTTTAATTCTCGGTACCAGCGTACTTTTATTTTCTCTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATATCAAGATGTTATCAATCGGATAGGTCAAATAGGTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCTAATTGTCACTTGAGAATAGCATGTGAGCAAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	TGCCATCAATATTAAGAATTTCTGTCCATCTTTTTTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCGTCAAATTCCTGGTTTATTATTCTATGATTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCTACCACTCTTTTTTGTAACAATAGCTTTGTCATA
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|2|2|236819-237391|CRT
GTTTTCTCCCGACTATGAGGGAATTGAAG	GTATAAATCGAATCGTACGAACTATCGTAAAAATTGAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATTTCTAACTCTACATAGTGAACATCAAGAAATTTAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGCTTTTTGACATTTTTTAATTCTCGGTACCAGCGTACTTTTATTTTCTCTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATATCAAGATGTTATCAATCGGATAGGTCAAATAGGTT
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCTAATTGTCACTTGAGAATAGCATGTGAGCAAAT
GTTTTCTCCCGACTATGAGGGAATTGAAG	TGCCATCAATATTAAGAATTTCTGTCCATCTTTTTTC
GTTTTCTCCCGACTATGAGGGAATTGAAG	CTCGTCAAATTCCTGGTTTATTATTCTATGATTTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCTACCACTCTTTTTTGTAACAATAGCTTTGTCATA
GTTTTCTCCCGACTATGAGGGAATTGAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674807.1\|230580_231501_+\|DNA-polymerase-III-subunit-delta'	unknown	unknown	gnl\|CDD\|273213
NC_012438.1\|WP_012674776.1\|245286_246360_-\|3-isopropylmalate-dehydrogenase	unknown	unknown	gnl\|CDD\|234832
NC_012438.1\|WP_012673589.1\|229206_229431_+\|UPF0175-family-protein	unknown	unknown	gnl\|CDD\|377095
NC_012438.1\|WP_012674286.1\|234122_234953_-\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|223890
NC_012438.1\|WP_012674180.1\|241280_242435_-\|SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|224481
NC_012438.1\|WP_012674693.1\|246361_247201_-\|carboxylating-nicotinate-nucleotide-diphosphorylase	unknown	unknown	gnl\|CDD\|238806
NC_012438.1\|WP_012673774.1\|229969_230584_+\|dTMP-kinase	unknown	unknown	gnl\|CDD\|234814
NC_012438.1\|WP_012673552.1\|235011_235263_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674778.1\|242434_243127_-\|NADH-quinone-oxidoreductase-subunit-I	unknown	unknown	gnl\|CDD\|235637
NC_012438.1\|WP_012674598.1\|240911_241280_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674269.1\|243478_245212_-\|NADH-quinone-oxidoreductase-subunit-D	unknown	unknown	gnl\|CDD\|223722
NC_012438.1\|WP_012674537.1\|229423_229906_+\|DUF3368-domain-containing-protein	unknown	unknown	gnl\|CDD\|225269
NC_012438.1\|WP_012674039.1\|247693_248347_+\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_012438.1\|WP_012674856.1\|233557_234016_+\|PIN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350244
NC_012438.1\|WP_012674016.1\|233367_233568_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673795.1\|247208_247637_-\|protoporphyrinogen-oxidase-HemJ	unknown	unknown	gnl\|CDD\|367596
NC_012438.1\|WP_012674047.1\|237479_240911_+\|reverse-gyrase	unknown	unknown	gnl\|CDD\|236498
NC_012438.1\|WP_012673641.1\|243128_243479_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226400
NC_012438.1\|WP_012674650.1\|232328_233285_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	unknown	unknown	gnl\|CDD\|182814
NC_012438.1\|WP_012673868.1\|231511_232348_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224688

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674039.1\|247693_248347_+\|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].	3.00818e-56
NC_012438.1\|WP_012673589.1\|229206_229431_+\|UPF0175-family-protein	gnl\|CDD\|377095	pfam03683, UPF0175, Uncharacterized protein family (UPF0175). This family contains small proteins of unknown function.	1.57252e-18
NC_012438.1\|WP_012674286.1\|234122_234953_-\|radical-SAM-protein	gnl\|CDD\|223890	COG0820, COG0820, Predicted Fe-S-cluster redox enzyme [General function prediction only].	4.35659e-55
NC_012438.1\|WP_012674180.1\|241280_242435_-\|SAM-dependent-methyltransferase	gnl\|CDD\|224481	COG1565, COG1565, Uncharacterized conserved protein [Function unknown].	1.17047e-97
NC_012438.1\|WP_012674693.1\|246361_247201_-\|carboxylating-nicotinate-nucleotide-diphosphorylase	gnl\|CDD\|238806	cd01572, QPRTase, Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.	5.34428e-140
NC_012438.1\|WP_012674807.1\|230580_231501_+\|DNA-polymerase-III-subunit-delta'	gnl\|CDD\|273213	TIGR00678, DNA_polymerase_III_subunit_delta', DNA polymerase III, delta' subunit. This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau. [DNA metabolism, DNA replication, recombination, and repair].	1.3673e-52
NC_012438.1\|WP_012674776.1\|245286_246360_-\|3-isopropylmalate-dehydrogenase	gnl\|CDD\|234832	PRK00772, PRK00772, 3-isopropylmalate dehydrogenase; Provisional.	0
NC_012438.1\|WP_012674778.1\|242434_243127_-\|NADH-quinone-oxidoreductase-subunit-I	gnl\|CDD\|235637	PRK05888, PRK05888, NADH-quinone oxidoreductase subunit NuoI.	3.39204e-44
NC_012438.1\|WP_012674269.1\|243478_245212_-\|NADH-quinone-oxidoreductase-subunit-D	gnl\|CDD\|223722	COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion].	0
NC_012438.1\|WP_012674537.1\|229423_229906_+\|DUF3368-domain-containing-protein	gnl\|CDD\|225269	COG2405, COG2405, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only].	4.66057e-39
NC_012438.1\|WP_012674650.1\|232328_233285_+\|KpsF/GutQ-family-sugar-phosphate-isomerase	gnl\|CDD\|182814	PRK10892, PRK10892, arabinose-5-phosphate isomerase KdsD.	8.9395e-123
NC_012438.1\|WP_012674856.1\|233557_234016_+\|PIN-domain-containing-protein	gnl\|CDD\|350244	cd18677, PIN_MjVapC2-VapC6_like, VapC-like PIN domain of Methanocaldococcus jannaschii VapC2, and VapC6, and related proteins. This subfamily includes Methanocaldococcus jannaschii VapC2 and VapC6. It belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	3.5822e-48
NC_012438.1\|WP_012673795.1\|247208_247637_-\|protoporphyrinogen-oxidase-HemJ	gnl\|CDD\|367596	pfam03653, UPF0093, Uncharacterized protein family (UPF0093).	5.35675e-56
NC_012438.1\|WP_012674047.1\|237479_240911_+\|reverse-gyrase	gnl\|CDD\|236498	PRK09401, PRK09401, reverse gyrase; Reviewed.	0
NC_012438.1\|WP_012673641.1\|243128_243479_-\|hypothetical-protein	gnl\|CDD\|226400	COG3883, COG3883, Uncharacterized protein conserved in bacteria [Function unknown].	0.000217664
NC_012438.1\|WP_012673774.1\|229969_230584_+\|dTMP-kinase	gnl\|CDD\|234814	PRK00698, tmk, thymidylate kinase; Validated.	3.7213e-81
NC_012438.1\|WP_012673868.1\|231511_232348_+\|hypothetical-protein	gnl\|CDD\|224688	COG1774, COG1774, Uncharacterized homolog of PSP1 [Function unknown].	6.10756e-49

>NC_012438.1|WP_012673552.1|235011_235263_+|hypothetical-protein
MNIKEIKELAKKFTPQQIEQCINEALQHGKPLTEGCNPSGDIVEVLNTLAKAQTVRELIEKGMTETEAIRELARRIREIQSVK
>NC_012438.1|WP_012674286.1|234122_234953_-|radical-SAM-protein
MEVVKIINDDLNTLFEIKTDDGYTIESVHYRKTLCVSSQVGCSIKCSFCASGLNGLTRNLSFDEIINQYLMVKDKGYEIESIAFAGIGEPLLNWENVKQAFDYFKSQGLSVSFYTTGFPISNFKQLLALNHDGVNLSLHSVFEEKRKSLIPNSHTISQLIQVFKDHLQQLSNRKKKLYNIAYILIYGENDSYEEIDKLGEIAKELGIGVSLLKYNEIEFFPYKSVPDDRYEELFLRLREKGIRVTLSNKYRTRKIGGCGTLMVNRLELHKLNFTIF
>NC_012438.1|WP_012674856.1|233557_234016_+|PIN-domain-containing-protein
MNNKIFIDSSIFIETFKGNTAAKEILEVAIDNFDVFINSIVFSEVIFKLIVLKSGKSILTIKNQKNLISSLMKELESYSELLLLFNVLEENKEILDISLKLMEKYDLLTNDALILATCKYYEIDKIASLDTDFEKATTNENIKLIRNVNDLK
>NC_012438.1|WP_012674016.1|233367_233568_+|hypothetical-protein
MGKVIIETKDNGELKIKTSLTLEQIKNLIEGIEKKEKAKKLLNATFNTLKENRELEIKSELEWYEQ
>NC_012438.1|WP_012674650.1|232328_233285_+|KpsF/GutQ-family-sugar-phosphate-isomerase
MDVQIIDLGKQTIEEEIRALNRLKECLDESFEKAVKLILEAQGKVIITGMGKSGLIGKKIAATMSSTGTPAFFLHPAEALHGDLGMVEKKDLIIAISNSGETPELLAIIPILKRWGNKIIAITNKRDSSLTKYADVSLYLNVDKEACPLNLAPTSSSTATLVLGDALAVALLRLRNFTPENFAMFHPGGSLGKKLMKVADIMRKDLPIVCEDTPLKEAVIVMSEKGLGSTLVLDKDNNLTGIITDGDLRRFINKGKSIDNSLSKDAMTKNPKTASPDWLVLQALELMERHNITVLPVVEDKKPVGIIHIHDILKSGVI
>NC_012438.1|WP_012673868.1|231511_232348_+|hypothetical-protein
MDNIKPVRIRFLDTNKFSEVIVPTSIKKGDFIVIESEKGHELVLVMGNCVYTDDTKNYQFIRKATKEDIVIFDKHEEEAQEFLNICKEESEKLGLKMNLLKSYIPLNRTKALFYYTAENRVDFRELVKIMAKRIKMRIEMRQVGVRDGVQIAGAVGVCGHQCCCNLFLDKFENISVEILTEQNLPPTPTKFTGVCGRLMCCLTFEKETYSIKNDLPEIESVIEIEGKPYTVKMYDFIGEKVIVADEEGNLRDITFTQLESMNLLKPKGCGSCNGCANH
>NC_012438.1|WP_012674807.1|230580_231501_+|DNA-polymerase-III-subunit-delta'
MKVIGHQKEIELIKKYLSKNYDSLSLLYEGKDCIGKKLIAFLTARGFLCEKKQGLGCGECHDCKLVNNLISNVYNKENLTPHPNIKFIPYEGKEIKIDQIREAISFLTLKSDKGKVLIIEKAENMNTESANALLKTLEEPPLNTLIILTTSNQNQLLPTIVSRLKKIRFRKLSEEEVRDILRLKISDEKKVENLSKISGGSLCLPFSIINKENVYNLAHSYYELIKTKKHQEGLFSITPIVDKFDSDDTNLFFDIILRFFEQDLQSGKVDNNFAESFISEFKKAKGAVLRGVKKKLVLEGMYYNLK
>NC_012438.1|WP_012673774.1|229969_230584_+|dTMP-kinase
MGVFITFEGIEGSGKSTQAKRLYEYLTNIGIKAYLTREPGGTSIGKKIREILLSHWEENFPSIAELLLYQADRNIHVNNIIKPLLQQDYIVISDRFYDSTTAYQHYARGIDYSIVDYLNKLATEGIKPHITFLLDLPVQEAFKRLNREKDRLESEGLNFHQKVREGFLKIADMEKDRVIVLDGLKSPDEIFNQILNILKERKIL
>NC_012438.1|WP_012674537.1|229423_229906_+|DUF3368-domain-containing-protein
MRKVVSNTTPILSFIKLNRIDILEKIYERILIPEAVFGEIQEGKNKYYIDISKEPWIEILKVENRKILEQLEKELDKGEAEAIALSLELPADLLLIDEKLGRRIAEEKGIKISGTIGILIKAKKQGIIKEVKPFIYELIEKGNYYEESFIKLILQHTGEM
>NC_012438.1|WP_012673589.1|229206_229431_+|UPF0175-family-protein
MKIVINLPDELKLKEEEVKTAAIVKLYELGKISSGKAAKLLGISRIEFLDLLGKYKVQISPDTEEELIKDIENA
>NC_012438.1|WP_012674047.1|237479_240911_+|reverse-gyrase
MIYAIFEKLCPNCHGEISSYRLEKGLPCKKCLPDEDLDVCQHVKPGDIKQLCHLQDTLQTWQEHFQTYIKSKPWNLQNTWAKRVFLKHSFVLLAPTGIGKTSFGISMASFLAKQGKKSYILLPTKLLVKQVYEKVKNFGVDKKDILAIGLEKSNKEKEENKERLKNADFKILITTSMFLYKNFEIYPRDFEFIFVDDVDSFVKTAKNIDKALYLLGFTQEDIEKALILIKLKAKPNKTQEDWDKINQLTEYLQKQRKKITGVLIVSSATSKPRSNRVKLFRELLGFEISSPTFYLRNIVDSYDEEYSFEKLLYWINKLGKGGLVFIPSDKGKEFVDEVVEKLNKHKIKAVSYEELDDKNLKKFEEGKIQVLVGISSYRNPLARGLDLPHVIRYALFYGVPKISISLKLEENLSHMLWALTSIRSYVIKKFPEITIKINQWITQLQKYQNLTLDFIQNNPQLKEKIENLQKEIRDFFQRPEVLEVLKSSDEIVLKQKEDGYYLIVSDATGYLQASGRTSRLYAGGITKGLSLILIDEKSAFKHLNKRVKWFSEEIEFVNINQVNLDQLIKQIDEDREKVRNFLTNSTKTISSSDLLKPTLIIVESPTKAKTIANFFGKPVRRKINQTEVLETSTEGRYLMITASLGHILDLVKNIAYHGVIVEDKEIIPIYETIEGKEETVENLRRLAIENMEILLGTDPDAEGEKISWDLQDLLKPILKNIKRIEFHEVTKKAITKAINDPRDINENLVKAQIVRRVADRWVGFEYSQLLQKEFQKNWLSAGRVQTPVLGWIIKRQQEASKKIYVINVSIPVEDKKFSFEITFETKEEAEKFYQNLKEVEVVVEKRYEEVENPPPPYRTDTLLKDASDKFRFTLPQTMDLAQTLFELGYITYHRTDSIRVSDAGIYLAKEIITQEFGENYFKPRVWGEGGAHECIRPTKNITPEDLESLMLSKQIEGLSYNHIKLYKLIFNRFIASQMIPVKVEMADIVIKALNFEIKETIKTKVLQDGWNLVLGIETRPLIEGKIDVQEYKNLLQRPKAYLYTHGEIVKEMKEKGIGRPSTYATIIAKLLERGYVIERKGFLIPTNLGKTVYNFLTNKPNLKEFLSEEFTRKLEEIMDKVEEGKEDYITVLKDLFVKVRKIS
>NC_012438.1|WP_012674598.1|240911_241280_-|hypothetical-protein
MLYNFIVAFSFLLIATFSYWYSSKLANYKKTSFFMSFFVVLIPYTLSGGLKLLTEKFISHYSLLVMFLALIILQTYFGKLIFKEDLKKTLIASLLGLIVTVIIGLPILVLSGIAITYLNLKQ
>NC_012438.1|WP_012674180.1|241280_242435_-|SAM-dependent-methyltransferase
MKLSGKKELIDIVLNDIKKRGGISFKDFMDYALYYPSLGYYTCDKEKIGGYGDFFTSSELDPVFGQLLAKQFNEIYLNYFKGKKIKLVELGSGKGVLAFDILNEIKTNYPEFYENLEFISVEKSPFHIQHQQKVLNGFNVKWLESIEDLEDIEGIVYSNELFDALPVHLIKKKNGKIYEIYLNEKDGEIVEELREISEDVLTYIKELKIDIPEGMTTEVNLLAKDLIQTIGQKLKKGFVFTVDYGYPSKELYKPYRMKGTLLCYYKHTYNENFYENIGFQDITSHVNFSALVYYGKKAGLEFTGFTDQAHFLINLGLGDIMIQLQEKGDSKSFERINRLKTLILPKGMGEKFKILIQHKNIKNPILSGLKIIPPQNDRYKIEEI
>NC_012438.1|WP_012674778.1|242434_243127_-|NADH-quinone-oxidoreductase-subunit-I
MGIKKVGAKPQTLVEKIFFLDFIKGLKTTIKHLWKKVITVDFPYEVVTPPPRFRGVHGLRTVDGTENPEFDSWVKRLKIKPPEPGETRCIACKFCQAACPVPELFDIQSEKLDVPEGHPHYGLKVMTVFNMDLSKCTFCGLCTQACPTDCIIMTDIYDLSSYTRRSWVLDKDMLTQIANDFVARRGKEKFDEKSQWREDQKLWPEYDRTREKLWDFNMPKLGLNYHDQTA
>NC_012438.1|WP_012673641.1|243128_243479_-|hypothetical-protein
MKILRAVFILIICLPFYVKADSFTEKDKELLINLSMQLSELKARLEEIDKRLGQVDKRIDSTDKRIDSVEKRIDQIDKKIDQLYTFLWIITGIFTTLTATTIGFALWDRRTYLKEA
>NC_012438.1|WP_012674269.1|243478_245212_-|NADH-quinone-oxidoreductase-subunit-D
MSWISVEKAKKLEERFGYPKVSQDKSGVVSVEVPKDKFIEFLKFLKEDKEYDFRMFLDLTIIDHGEKEDPRFQGVVILFSPTYQHRIIVKTWALDETLPTLTNLWKGAKWAEREAWDMFGIKFEGHENLVRMLLWETYPYHPLRKDFPLEGIKDTYLPSLNETLRGDSLEGLFNYDRMHTAIPTMEDLEITQKKRMPVKTSQIVLNWGPLHPGTHGTIWFLFDLDGEYVKQCDIIIGQLHRGVEKLGENVNWQQFIPYTDRMDYIAAINENHAYVLAAEKLLGIEIPEKAKWIRTMMAELSRINSHLLWLGTYALDLGALTMFLYTFREREKIMDIIEGISGARFTINYFRIGGVFADLPYGALDAIEHLIKDLPERINDYETLLTRNRIWLSRNKDVCIITEEDVYEYGLTGAVARGSGVPYDVRKIDKYDAYGEVEFDIPVGETGDSYDRYLVRMEEMRQSIRIIEQCVAKLRRMSKNDPYFFQTPDEKKLKVTIDGRGMKLPAGEVYASSDNPRGELGFYIYNKKDGLKAHRMRIRSGAFYNLQVFTKAIIGRPIADAITLLSTIDPVVGETDR
>NC_012438.1|WP_012674776.1|245286_246360_-|3-isopropylmalate-dehydrogenase
MKKHFKIAVLPGDGIGPEIIESALKVLDVISKKYGITFEYKHGLVGGAAIDETGDPLPPETLKICKESDAVLFGAVGGEKWDNLPTDKRPEKGLLRIRKELELFANIRPAKAYAPLLSSSPLKEEVIKGVDLVVLRELTGDVYFGEPRGREVRNGERVGYNTMIYYEHEIKRIAKVAFEMARNRRKKVTSVDKANVLEVSGLWREVVNEVHADYLDVDLEHMYVDNCAMQLIRRPKDFDVIVTGNIFGDIISDEAGALTGSLGMLPSASIGERYAFYEPIHGSAPDIAGKGIANPIATILSAAMMLEITCKLPQAARDIEKAVEKVLEDDYRTADIWSPGTKKVNTAEMTEEIIKRL
>NC_012438.1|WP_012674693.1|246361_247201_-|carboxylating-nicotinate-nucleotide-diphosphorylase
MLDRVFVRRKILEFLEEDIGYRDLTTDSLDVDKNVEGFFIAKQSGVVAGTVFVKEVFNVFGDVSFQSFKKEGDYIEKGEIIGLVYGNCKSILKGERVALNILQRLSGIATLTNLFIKELEGTKTKLLDTRKTTPGFRAFEKYAVKVGGGENHRFALYDMVMLKDNHIALVGSIKEAVKQVKSKVSPIVKVEVEVSNFDQLYEALETEADIIMLDNMTPTQVKEAVEIINGKKLVEVSGNITLENIKQYALSNPDFVSTGSVIHSAKWLDISLKLNTGGV
>NC_012438.1|WP_012673795.1|247208_247637_-|protoporphyrinogen-oxidase-HemJ
MYIWLKVIHIIFMVSWMAVLFYLPRLFVYHAENKDNKGFVQVVKVMEKKLFYFIGIPAFVLTVVSGLGMIALNLSLLTSGGWLHAKIVLVILLTAFFFHNEYVRRKFLKDQCSKSGKFFRMYNEIPTIILILIVILVIVKPF
>NC_012438.1|WP_012674039.1|247693_248347_+|response-regulator-transcription-factor
MRVLLVEDDLVLGESLKEYLEENQVEVVWISDDRKLDEALQMNEYDVIVLDLILKYEKGESILKGLRDKGVKTPVIIITAKNKIEDKETCFNFGADDYLTKPFNPKELLLRIKALSKRVHIPNKYKIKDVEIDLENQIVLKEGKEVKLSKTGWNLLALLLKRKGQVVSTEIILNYVWPDKAVGDEIVRQYIKELRKILPPDSIETHKGIGYRLKDEV

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Crispr_ID: NC_012438_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_3

290882-291432

TypeV-U3

Consensus_repeat	Method
GTTTTGTCTGAACTATGTGGGATAGAAAG	PILER-CR
GTTTTGTCTGAACTATGTGGGATAGAAAG	CRISPRCasFinder
GTTTTGTCTGAACTATGTGGGATAGAAAG	CRT

8 spacers

c2c10_CAS-V-U3

The CRISPR arrays of NC_012438_3

>merge|NC_012438|3|290882-291432|PILER-CR,CRISPRCasFinder,CRT
GTTTTGTCTGAACTATGTGGGATAGAAAGTGCCATCGATTGTTATAATCTCGGTCCACTTTCTTTGTTTTGTCTGAACTATGTGGGATAGAAAGTATGCTTTTAGACTAAAATACATTGATAAAATCGAGTTTTGTCTGAACTATGTGGGATAGAAAGTTTATTGGAGTTAAATAATGTTACAAATCATCTATGGGTTTTGTCTGAACTATGTGGGATAGAAAGTCTTCAAAATAATCATACTTTAACCACTCTAAACCTGTTTTGTCTGAACTATGTGGGATAGAAAGACTTTTTCAGGTCAGATAACAGTCACAATCTCTCCGTTTTGTCTGAACTATGTGGGATAGAAAGCAGGTTTTTCGTATGGTATAAAAATTCTATTTTTTTGTTTTGTCTGAACTATGTGGGATAGAAAGTTTTTTTAAATTCATAATTATATTATCACACTTTTGGTTTTGTCTGAACTATGTGGGATAGAAAGTCTCATTCTACTCTAAAAATGATGTAAAAAGCATAGAGGGTTTTGTCTGAACTATGTGGGATAGAAAG

>NC_012438|3|3|290882-291432|PILER-CR
GTTTTGTCTGAACTATGTGGGATAGAAAG	TGCCATCGATTGTTATAATCTCGGTCCACTTTCTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TATGCTTTTAGACTAAAATACATTGATAAAATCGA
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTATTGGAGTTAAATAATGTTACAAATCATCTATGG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTTCAAAATAATCATACTTTAACCACTCTAAACCT
GTTTTGTCTGAACTATGTGGGATAGAAAG	ACTTTTTCAGGTCAGATAACAGTCACAATCTCTCC
GTTTTGTCTGAACTATGTGGGATAGAAAG	CAGGTTTTTCGTATGGTATAAAAATTCTATTTTTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTTTTTAAATTCATAATTATATTATCACACTTTTG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTCATTCTACTCTAAAAATGATGTAAAAAGCATAGAGG
GTTTTGTCTGAACTATGTGGGATAGAAAG

>NC_012438|3|3|290882-291432|CRISPRCasFinder
GTTTTGTCTGAACTATGTGGGATAGAAAG	TGCCATCGATTGTTATAATCTCGGTCCACTTTCTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TATGCTTTTAGACTAAAATACATTGATAAAATCGA
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTATTGGAGTTAAATAATGTTACAAATCATCTATGG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTTCAAAATAATCATACTTTAACCACTCTAAACCT
GTTTTGTCTGAACTATGTGGGATAGAAAG	ACTTTTTCAGGTCAGATAACAGTCACAATCTCTCC
GTTTTGTCTGAACTATGTGGGATAGAAAG	CAGGTTTTTCGTATGGTATAAAAATTCTATTTTTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTTTTTAAATTCATAATTATATTATCACACTTTTG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTCATTCTACTCTAAAAATGATGTAAAAAGCATAGAGG
GTTTTGTCTGAACTATGTGGGATAGAAAG

>NC_012438|3|3|290882-291432|CRT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TGCCATCGATTGTTATAATCTCGGTCCACTTTCTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TATGCTTTTAGACTAAAATACATTGATAAAATCGA
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTATTGGAGTTAAATAATGTTACAAATCATCTATGG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTTCAAAATAATCATACTTTAACCACTCTAAACCT
GTTTTGTCTGAACTATGTGGGATAGAAAG	ACTTTTTCAGGTCAGATAACAGTCACAATCTCTCC
GTTTTGTCTGAACTATGTGGGATAGAAAG	CAGGTTTTTCGTATGGTATAAAAATTCTATTTTTTT
GTTTTGTCTGAACTATGTGGGATAGAAAG	TTTTTTTAAATTCATAATTATATTATCACACTTTTG
GTTTTGTCTGAACTATGTGGGATAGAAAG	TCTCATTCTACTCTAAAAATGATGTAAAAAGCATAGAGG
GTTTTGTCTGAACTATGTGGGATAGAAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674844.1\|297148_297775_-\|bifunctional-phosphoribosyl-AMP-cyclohydrolase/phosphoribosyl-ATP-diphosphatase-HisIE	unknown	unknown	gnl\|CDD\|235067
NC_012438.1\|WP_012674168.1\|293781_294084_-\|HU-family-DNA-binding-protein	unknown	unknown	gnl\|CDD\|259857
NC_012438.1\|WP_148205386.1\|295324_295936_-\|viral-A-type-inclusion-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674820.1\|276814_278119_+\|FADH(2)-oxidizing-methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))--methyltransferase-TrmFO	unknown	unknown	gnl\|CDD\|235416
NC_012438.1\|WP_012674479.1\|294849_295335_-\|6-carboxytetrahydropterin-synthase	unknown	unknown	gnl\|CDD\|376501
NC_012438.1\|WP_012674051.1\|296668_297136_-\|peroxiredoxin	unknown	unknown	gnl\|CDD\|239315
NC_012438.1\|WP_012673600.1\|279319_279997_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213222
NC_012438.1\|WP_012674469.1\|285411_286395_+\|UDP-3-O-(3-hydroxymyristoyl)glucosamine-N-acyltransferase	unknown	unknown	gnl\|CDD\|234858
NC_012438.1\|WP_012673548.1\|284914_285415_+\|OmpH-family-outer-membrane-protein	unknown	unknown	gnl\|CDD\|377167
NC_012438.1\|WP_012674043.1\|297877_299047_-\|nucleotide-sugar-dehydrogenase	unknown	unknown	gnl\|CDD\|185017
NC_012438.1\|WP_012674991.1\|295892_296672_-\|dihydroorotate-dehydrogenase-electron-transfer-subunit	unknown	unknown	gnl\|CDD\|99814
NC_012438.1\|WP_012674156.1\|286391_288686_+\|endonuclease-MutS2	unknown	unknown	gnl\|CDD\|234750
NC_012438.1\|WP_012673807.1\|276401_276818_+\|molybdenum-cofactor-biosynthesis-protein-MoaE	unknown	unknown	gnl\|CDD\|238385
NC_012438.1\|WP_012674376.1\|294225_294747_-\|gamma-carbonic-anhydrase-family-protein	unknown	unknown	gnl\|CDD\|100051
NC_012438.1\|WP_012673453.1\|294070_294229_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213052
NC_012438.1\|WP_148205406.1\|282591_284892_+\|outer-membrane-protein-assembly-factor-BamA	unknown	unknown	gnl\|CDD\|274514
NC_012438.1\|WP_012675125.1\|288831_290463_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	c2c10_CAS-V-U3	-	gnl\|CDD\|284650
NC_012438.1\|WP_012674085.1\|280048_282493_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	unknown	unknown	gnl\|CDD\|223616
NC_012438.1\|WP_012673647.1\|292908_293688_-\|5'/3'-nucleotidase-SurE	unknown	unknown	gnl\|CDD\|234732
NC_012438.1\|WP_012674052.1\|278115_279327_+\|lipoprotein-releasing-ABC-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|274034

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674844.1\|297148_297775_-\|bifunctional-phosphoribosyl-AMP-cyclohydrolase/phosphoribosyl-ATP-diphosphatase-HisIE	gnl\|CDD\|235067	PRK02759, PRK02759, bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase HisIE.	8.28998e-110
NC_012438.1\|WP_012674168.1\|293781_294084_-\|HU-family-DNA-binding-protein	gnl\|CDD\|259857	cd13835, IHF_A, Alpha subunit of integration host factor (IHFA). This subfamily consists of the alpha subunit of integration host factor (IHF) and IHF-like domains. IHF is a nucleoid-associated protein (NAP) that binds and sharply bends many DNA targets in a sequence specific manner. It is a heterodimeric protein composed of two highly homologous subunits IHFA (IHF-alpha) and IHFB (IHF-beta). It is known to act as a transcription factor at many gene regulatory regions in E. coli. IHF is an essential cofactor in phage lambda site-specific recombination, having an architectural role during assembly of specialized nucleoprotein structures (snups). IHF is also involved in formation as well as maintenance of bacterial biofilms since it is found in complex with extracellular DNA (eDNA) within the extracellular polymeric substances (EPS) matrix of many biofilms.	1.26566e-24
NC_012438.1\|WP_012674991.1\|295892_296672_-\|dihydroorotate-dehydrogenase-electron-transfer-subunit	gnl\|CDD\|99814	cd06218, DHOD_e_trans, FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.	3.55827e-106
NC_012438.1\|WP_012674820.1\|276814_278119_+\|FADH(2)-oxidizing-methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))--methyltransferase-TrmFO	gnl\|CDD\|235416	PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed.	0
NC_012438.1\|WP_012674479.1\|294849_295335_-\|6-carboxytetrahydropterin-synthase	gnl\|CDD\|376501	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase. 6-Pyruvoyl tetrahydrobiopterin synthase catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin, the second of three enzymatic steps in the synthesis of tetrahydrobiopterin from GTP. The functional enzyme is a hexamer of identical subunits.	3.75475e-36
NC_012438.1\|WP_012674051.1\|296668_297136_-\|peroxiredoxin	gnl\|CDD\|239315	cd03017, PRX_BCP, Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), which functions as an alkyl-hydroperoxide reductase during post-diauxic growth.	6.76428e-68
NC_012438.1\|WP_012673600.1\|279319_279997_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213222	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein. This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of lipoproteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyzes the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.	1.1271e-116
NC_012438.1\|WP_012674469.1\|285411_286395_+\|UDP-3-O-(3-hydroxymyristoyl)glucosamine-N-acyltransferase	gnl\|CDD\|234858	PRK00892, lpxD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional.	4.33867e-131
NC_012438.1\|WP_012673548.1\|284914_285415_+\|OmpH-family-outer-membrane-protein	gnl\|CDD\|377167	pfam03938, OmpH, Outer membrane protein (OmpH-like). This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery.	2.06837e-19
NC_012438.1\|WP_012674043.1\|297877_299047_-\|nucleotide-sugar-dehydrogenase	gnl\|CDD\|185017	PRK15057, PRK15057, UDP-glucose 6-dehydrogenase; Provisional.	0
NC_012438.1\|WP_012674156.1\|286391_288686_+\|endonuclease-MutS2	gnl\|CDD\|234750	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed.	0
NC_012438.1\|WP_012673807.1\|276401_276818_+\|molybdenum-cofactor-biosynthesis-protein-MoaE	gnl\|CDD\|238385	cd00756, MoaE, MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), which carries the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase in the second major step in Moco biosynthesis. MPT synthase is a heterotetramer consisting of two large (MoaE) and two small (MoaD) subunits.	1.01745e-48
NC_012438.1\|WP_012674376.1\|294225_294747_-\|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.	2.16246e-91
NC_012438.1\|WP_012673453.1\|294070_294229_-\|hypothetical-protein	gnl\|CDD\|213052	cd12087, TM_EGFR-like, Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases. PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. EGFR (HER, ErbB) subfamily members include EGFR (HER1, ErbB1), HER2 (ErbB2), HER3 (ErbB3), HER4 (ErbB4), and similar proteins. They are receptor PTKs (RTKs) containing an extracellular EGF-related ligand-binding region, a transmembrane (TM) helix, and a cytoplasmic region with a tyr kinase domain and a regulatory C-terminal tail. They are activated by ligand-induced dimerization, resulting in the phosphorylation of tyr residues in the C-terminal tail, which serve as binding sites for downstream signaling molecules. Collectively, they can recognize a variety of ligands including EGF, TGFalpha, and neuregulins, among others. All four subfamily members can form homo- or heterodimers. HER3 contains an impaired kinase domain and depends on its heterodimerization partner for activation. EGFR subfamily members are involved in signaling pathways leading to a broad range of cellular responses including cell proliferation, differentiation, migration, growth inhibition, and apoptosis. The TM domain not only serves as a membrane anchor, but also plays an important role in receptor dimerization and optimal activation. Mutations in the TM domain of EGFR family RTKs have been associated with increased breast cancer risk.	0.00974366
NC_012438.1\|WP_148205406.1\|282591_284892_+\|outer-membrane-protein-assembly-factor-BamA	gnl\|CDD\|274514	TIGR03303, OM_YaeT, outer membrane protein assembly complex, YaeT protein. Members of this protein family are the YaeT protein of the YaeT/YfiO complex for assembling proteins into the outer membrane of Gram-negative bacteria. This protein is similar in sequence and function to a non-essential paralog, YtfM, that is also in the Omp85 family. Members of this family typically have five tandem copies of the surface antigen variable number repeat (pfam07244), followed by an outer membrane beta-barrel domain (pfam01103), while the YtfM family typically has a single pfam07244 repeat. [Protein fate, Protein and peptide secretion and trafficking].	5.09103e-150
NC_012438.1\|WP_012675125.1\|288831_290463_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|284650	pfam07282, OrfB_Zn_ribbon, Putative transposase DNA-binding domain. This putative domain is found at the C-terminus of a large number of transposase proteins. This domain contains four conserved cysteines suggestive of a zinc binding domain. Given the need for transposases to bind DNA as well as the large number of DNA-binding zinc fingers we hypothesize this domain is DNA-binding.	3.07852e-22
NC_012438.1\|WP_012674085.1\|280048_282493_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	gnl\|CDD\|223616	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones].	0
NC_012438.1\|WP_012673647.1\|292908_293688_-\|5'/3'-nucleotidase-SurE	gnl\|CDD\|234732	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional.	5.10315e-119
NC_012438.1\|WP_012674052.1\|278115_279327_+\|lipoprotein-releasing-ABC-transporter-permease-subunit	gnl\|CDD\|274034	TIGR02212, releasing_system_transmembrane_protein_lolC., lipoprotein releasing system, transmembrane protein, LolC/E family. This model describes the LolC protein, and its paralog LolE found in some species. These proteins are homologous to permease proteins of ABC transporters. In some species, two paralogs occur, designated LolC and LolE. In others, a single form is found and tends to be designated LolC. [Protein fate, Protein and peptide secretion and trafficking].	2.87514e-114

>NC_012438.1|WP_012675125.1|288831_290463_+|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MVNKNLKITSGRDNVEFYLIVDGEEIPLKKQDIRNLITEFLKDVRLAYIKFLPNIELIQTGKYFTVNINSKRLTNENLSNSLTKLIPKNYIELEINGSKVKLDYKKDYVATSILYSVAKDITGNLKEGKTVVIKNLQYLARIKPDKNTPYDKAFSQVIKEFEIVENGKTVECVITFSAFKNASIKVKFKMNLRKKNFAVNNSYYQILNRIKNQEYKVAYIGIGYREKKGAFLLISYKFEKQPETSQEQEKVMGVDLGQVYLIYYSITNSHSRGDISLSYSWKDKIIGIWNRKKHLQKSLMEIRNLKKQGINDESIEKRYEKIVKELNSVREYEKNFMETLNKQIATKLIDIAVKEKVKTIVLEDLSLSNEEKNSLAFPKWNYYQLQSFIENKAQENGIQVKKINPAYTSQRCPSCGFIAFYKEMVRPKREKFTCPVCGFSSNADYVASLNIAEENIEEKIKARLISDIEKIEKVDKNNKVFTLFAIRNRIVKDLLKEFFNTNNGSSKKLLKRLEISNKEAYNTLIRDLKQFKVEYLDKRISNV
>NC_012438.1|WP_012674156.1|286391_288686_+|endonuclease-MutS2
MREKDLESIEYNKFLELLSSYTHNDLTKRHIINLRPFNNLEKLQKEIQKTKELYDLFIKKGYLPLTEYPDISQALNLAVIQDSILSPKDLFDIASLLKVVKEVKSYIDVSQVQVLKSLHQDLTPLRELEKAITDSIDNTFSVKDTASIDLSRIRKEIKEVESKINKVLESILNKPAYEEAIQEKIITIRRERFVIPIKYNYTHKIKGIILDRSSSGNTVYIEPFEVVPLNNKLSDLKLQEQIEIRKILKFLTDLVRSKVHFIKKSFEAILDFDILQAKVRYSKELDCIFPKQDEYLRLYNAKHPIFLLKNKPFNPIDIIVENKRGLIITGSNTGGKTVALKTAGLLSLLYKTAIPIPVDENSTVRVFDGVFIDIGDYQSIEENLSTFSYHVKNIKEILELSTQNSLLLFDELIPGTDPDFASALGIAILEYVREKGCFVIASTHLKKVKMYALSSDYYSIASVGFDKETLQPTYKIYYNTVGESMAFYIAQRLGLPEKILQIAKKYVEEDILKFQDMASNLSKMIAQYEEKIKEVEILKQQLQEEKQKYEELVRKLEQDRKEKWKESLKDIQDYIKNLKEEGYEILRQVKEEKSGSKLEKFIKTKKLEIQTIGQEEVNQEIKEGDAVRLKGKAQKGTVIAIRESKANVDFGGLKVWVDLSKIEKVSEEKKEEKQTVKVSKPSVNVMPSINLIGKTKEEAIKELEKYIDSILLQGLTTFKIIHGYGTGVLRKAVREYLDKLPYKVRYEDAPYHEGGMGATIVYLE
>NC_012438.1|WP_012674469.1|285411_286395_+|UDP-3-O-(3-hydroxymyristoyl)glucosamine-N-acyltransferase
MKLTQIASLINAKVENLKQDIEIKALKSIESATEQDLTFIKDPKKLTKTKAGAILTPSFIENLDIPQLIVEKPDIAFYKLIEIFYPEERQEGFISERAVIGKNVSIANSAVISEYVVIKDNVKIGKNTVVYPFSYIGENTEIGDNCIIYPSVVIYKDTKIGNNVIIHSGAVIASDGFGYYQEGNQRKKIKHVGKVIIEDDVEIGANTTIDRALVDYTIIKRGTKIDNLVMVGHNCKIGENTVLVSQVGIAGSCNIGNNVILAGQVGVADHITITDNVIVTAKSGVGSSITESGIYGSSINAIEWKKWKRVMSVIYKLPEIIKKFKVE
>NC_012438.1|WP_012673548.1|284914_285415_+|OmpH-family-outer-membrane-protein
MKKILSVLLMIFVISGVSKAANLAYVDMEKVMNESEKGKKYKKELESKLNYYQNKAKELQAKIQDIQKQLQSPALKDNAKEEKRKELRDLARQLQSLEVQASEELAKMKAEAEKNMVMEIKKIAEKIAKERNLDAVFYGGLVSGVLYASPKLDITNDVLKEYNKQK
>NC_012438.1|WP_148205406.1|282591_284892_+|outer-membrane-protein-assembly-factor-BamA
MTLDKPKIQTGTIQGEFSKVYRIEKIEIKGLKFFNEEIIKPLIPFGKGAIVSRDKIENTLRDLYKLGYFSNVEAYTKYTENGIDITFVFTELPVVQRIEFEGNKAISKDDLIKELGLDLSEKLESGKPLPFTTLGPELTSKLSSIKKGLGRVLSTDEIGQMVKRLQSLYEKRGYYNTKISYYYKGNTLVFKIEEGTKAYVEKIEIVGNKNIKTKEILSVMETSERSILKLKLHPSLVKETLYEDIDKIRNLYVGKGFFDVDIQEPEVKLIDGKKYHITIKINEGDRYKVESIKLENNDLYTNKELLEVTKRKAIKPGEYYDQEKIDFIKKNILDKYNDLGYIFANVEVNKLVNKEKKTVDVVFNINKGNIFYVDKIKIEGNYESRDSTIRRELKLAPGDLFKKENLLRSQARLYRLGYYDMVGFDPNVKSDNEMDLTTQVSERFTGQMSIGAGYSQQTGLSFFASIKKGNFLGTGDTAGISLSIGSKYRNNSLNYLHRWFLYKPLDLGLNLYDTYINYTSFVATKTGFSPTVSYEFKEYWRTGLTLTAEKGEYKDILDTASIYIKKQAGKYDLYSAGWFINRNTIDNPILPTSGSDLTLTLKAGTGTRDFYKVVLSGTKLIPDRIFYTNFIFSVKGTFGLVEKISKSIPLDELFFVGGDFTIRGFDWGRAGPLDENKDPAGAKREIVLNYQLAHPIVERFLWGFVFLDQGKGFDKGNPFSNLYNSVGAGLKIITPFAPIELYYGKVLNPPSGVSDSRFGFILGTFF
>NC_012438.1|WP_012674085.1|280048_282493_+|ATP-dependent-Clp-protease-ATP-binding-subunit
MFEKFTEKARKVILTAREHALSYRNNYLGSEHLLLALLDEDDITILVLSKFGLTVDKVKKTLTSQMSRGSHSGEVLFAPDAKRILEFAVEEARILHHPFVGPEHLLIGIIREKTGLGGRVLRGFGIDEYSVRREILSALGEIPSQEQTKSAPTPNLDRFGRDLTALAKEGKLDPVVGREKEIERVIQILSRRRKNNPVLIGEPGVGKTAIVEGLAQRIANKQVPETLQNKRIVALDLALIVAGTKYRGQFEERLKSILKELEKAPNVILFIDELHTMVGAGSAEGSLDASNMLKPALSRGEIQVIGATTLDEYRKYIEKDGALERRFQPVIVDPPSPENAILILEGLKKKFEEFHNVEYTKDAIEKAVEFSVKYISDRQLPDKAIDLLDEAGALVRLRELELPEDLKKIEEKIKEIEEEKTKAIREEDFEKASKLRDEEVKLRAKFETMKLNWKEQQKENRPKVTEKDIAEVVARWTGIPIARLTESNKEKLLHIEEELHKRVVDQNEAITAIAKAIRRNSVGLKGRHRPIGVFLFLGPTGVGKTETAKALAEYLFGKEDALIRFDMSEYMEKHTVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILFDEIEKAHPDVFNIFLQIFDDGRLTDSLGRVVDFSNTIIIMTSNLGAKMILDSGKMGFETKSSLVDYKDLKKNVMDQVKKAFNPEFVNRLDEIIVFKPLDKEVIKGIIDIQIKEINKRLKEWQIEVSLSPEFVNYLIEKEFKPEYGARSIKRALQSQVEDLLAEEILSGKLQPGSQVEVVLNPDNTVGLKVLQKKKGRKKKELQPA
>NC_012438.1|WP_012673600.1|279319_279997_+|ABC-transporter-ATP-binding-protein
MSSVLLENVKKVYRNGQEEVWALKGISLKIEKGQMVAVMGPSGSGKSTLLHIIGGIDYPTEGKVVINGLQIDSLNDKQLSKFRSENIGFVFQFHYLLPEFTALENVMIPIQIKGEKNPKEKASDILKKFNLQHRLNHKPSQMSGGEQQRVAIARAVANDPSLLIADEPTGNLDSQNAKNVIMLFKHLNESKGMTIIIATHDIEIAKYCKYIYYMRDGMLVDIEKV
>NC_012438.1|WP_012674052.1|278115_279327_+|lipoprotein-releasing-ABC-transporter-permease-subunit
MKLPLYLKISLRYLLSIKSNLLSFMTVVSIVGVMLGVAALIVTLSVMNGFMFGLKSKLLQTTPHIMILKADEKFDDYNQLIQKIKQNPQVLDYQPFIYTQGILSKDSKVSAVYVRGVDPEKDKNFLALDKRIILGNYDLSDECVIIGKDLAIMLGITVGDQVNLMSPVGRKTPLGFLPKIKPVKVCGIADLGIYEYNASFVATNLSFAQNFFDMGDSITAIQLKLKDPFKAEAVKSDIEKVLEFPYIVKSWMDMNKSLFQALELEKFAMFLVITLIVVVASFNIASLISTKSREKRKEIAILRTLGADRSFITKIFLFQGILIGVVGSILGTALGLLIVYLGDTYHLIKLNPEVYLIEYLPLRISLLEVLVIFLSSMVICFVSSVFPAVNASKESPAEVLRYE
>NC_012438.1|WP_012674820.1|276814_278119_+|FADH(2)-oxidizing-methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))--methyltransferase-TrmFO
MKVAVIGAGLAGSEAAYKIAQAGFKVDLYEMRPKKLTPAHTTGYFAEIVCSNSFGSESLTSGAGLLKKEMEELGSLLLDVAKEYKVPAGQAFAVDREKFSKKVTQVLENHPNINIVREEVKQLPDADIVVIATGPLTSEDFSKEIQKLTSSEYLYFYDAIAPVVDASTVDYSKGFWADRYGKGSGDYFNCVLSQEEYEVFYQELIKGEQVPLKDFEKAVYFEGCLPIEEMARRGKETLLYGPMKPVGLIDPKTGKRPFAVVQLRKENIEGTLLSLVGFQTKLKYPEQQRIFRLIPALKDAEFVKLGSIHRNTFIQSQKLLLPTLQLKKNPNILFAGQITGVEGYMASAATGIIAGINVVRILQGKEPLTVPKETMIGGLINYITTAKNELQPMGPNFALLPDINTKIKNKEERKLKKAEIALEKIKEFKEKINR
>NC_012438.1|WP_012673807.1|276401_276818_+|molybdenum-cofactor-biosynthesis-protein-MoaE
MIPQVYIGENWFSLDEVFNSYKNPLCGGVDIFIGVARSAPEDGDVEELHYEAYVSMAEKVINEIIQEAKEKFNIHHCVVHHRTGVVPVGVPSFLVVVWAGHRQEAFTGCRYVVDNVKARAPIWKKEVFKSGKSQWKES
>NC_012438.1|WP_012673647.1|292908_293688_-|5'/3'-nucleotidase-SurE
MKKLVFLTNDDGYQSKGLLAIRQELLKAGYEVITVTPDRNMSGASHSLTFTRPLKIVELEKNFYYIADGTPADCVHLGLNIILNGRKPDLLVSGINTGPNIGNDVFYSGTVGAAREGTLFDIPSVAFSVGSSKNPNYQEIAQVAMKIINVVILQGLPKGVFLNVNIPTIPKNQIKGFLLTKQGRSAYKEEIVKYLSPSKEEYYWIGGEEALLEECQPGTDYTAIKEGFVSITPIKLDLTDYQAIDELDKKDFLSEIMRI
>NC_012438.1|WP_012674168.1|293781_294084_-|HU-family-DNA-binding-protein
MKRADIVNMIHKDKDLNLSLDKREIHKIVNDTFDMISEYLTTDIKEGKKVMISGFGTFIIKRRKGKVGRNPKTGEEKLIPDRLGISFKAGKELKKKINQK
>NC_012438.1|WP_012673453.1|294070_294229_-|hypothetical-protein
MNETVELIIAIVVFVIAALVIVGLMVYWSKNETVVDERDKKYYKKEVKDEES
>NC_012438.1|WP_012674376.1|294225_294747_-|gamma-carbonic-anhydrase-family-protein
MAVIKPYKGVYPKIDPTVFVAENAVIIGDVEIGKDSSVWYNVVIRGDVNYIRIGERTNIQDGTIIHVDHKKYPTVIGNNVTIGHKVMIHACTIEDFCLIGMSATIMDGVVVGKQSIVAAGALVTPGKIIEPQSLWAGVPAKFVRKLTEEELNWLEKSAENYVKYKNSYLEELK
>NC_012438.1|WP_012674479.1|294849_295335_-|6-carboxytetrahydropterin-synthase
MKYEITKIFRFEAGHRVWKQDLRSGKTAKLSEGVVIENKCVNLHGHSYVLEVTVGSDTLNEQDVVVDFYHIKSALKDLVDNVFDHSFIIDVNDPIYPKFKELFGCYKITEVDFCPTAEALAKYFYDFLVQKLKEAGLEEDIKVVSVTLWETATGKATYRGE
>NC_012438.1|WP_148205386.1|295324_295936_-|viral-A-type-inclusion-protein
MKDPFLRQKRLKYFKFLIVLLIFTTQGFSEQMIVEPKVIEYKGVKEEQLKKVEDQVQRLYQKQKSLEEKLSQIENIKGLSQKDKEILQLLMSDIEEIKQNQRTLDNKLEKLYNYTNKALLLQNIIQFVIFSIFIVFMYILYILYKYKKDTNQEIKEFNEEIEKLAEKDESEIIMNLTEKAKEDPKAAAILKAYLDSRRKADEV
>NC_012438.1|WP_012674991.1|295892_296672_-|dihydroorotate-dehydrogenase-electron-transfer-subunit
MIYDLDCKILENRYISGKTYILKLQAPEIAKNTKSGQFVMVKPTLEDYYDPLLRRAFAIADIEDDTITLFYDVYGKGTSYLTTRNKGEYLKVLGPLGNNLFPEEYDNYIIVGGGIGFAGLSLFIKEIKRKGKKYTALYGARKKEDLSMIEWIEENQVEVIYYTDDGSFGKKGLVTQDLEKIIEDNPEAPLLVCGPKGMMKAVSKIAVSKNRPCYLSLESRMACGIGICVGCVVKDKSKDNYVRVCYEGPVFEAKEIEIL
>NC_012438.1|WP_012674051.1|296668_297136_-|peroxiredoxin
MEKAKDFCLPGIDENGREINFCLKDYLGKGKDIILYFYPKDDTPGCTTEACDFRDNFNLLKDYAIVVGVSPDSIENHKKFKEKYGLNFILLSDTEKKVMQEYGAYGEKTMYGKKTMGVIRSTFIIDTDGNIKKAWKNVKAKGHVDQILKFYGVKK
>NC_012438.1|WP_012674844.1|297148_297775_-|bifunctional-phosphoribosyl-AMP-cyclohydrolase/phosphoribosyl-ATP-diphosphatase-HisIE
MFNLEDVIKFNENGLVPVIAQNYYSGKILMQAYANKEAIQETIKSGYATYYSRSRKSLWKKGETSGNLQRVIDIKVDCDEDSVIYLVVEEGPACHTGEESCFYRNLNLEKDTKPLPFEILHKLYEKVEERKRLKPENSYVVKLFEKGSDKIIQKVGEEAIETVIALKNKNKEEIVYEVSDLLFHLIVALVDSGVELKDIQEELLKRYK
>NC_012438.1|WP_012674043.1|297877_299047_-|nucleotide-sugar-dehydrogenase
MKIAVAGAGYVGLSNAILLAQNHEVVLKDIDPTKVKLINNKVSPIIDKDVEYYLKSKPLNLKATLDKNEAYKNAKYVIIATPTDYDPITNYFNTKSVEAVIKEVLEVNPEAVMVIKSTIPVGYTEKVKKQFKTNNIIFSPEFLREGKALFDNLYPSRIVVGEKSERAREFANLLLEGAIKKDVPVLFTGSTEAESIKLFANTYLAMRVAFFNELDTFAESHGLNSREIIEGVCLDPRIGMHYNNPSFGYGGYCLPKDTKQLLANYMEKNIPHYLIKGTIESNIARKYYIAEQVVKKNPKVVGVYRLTMKSESDNFREAAIIDIIEYLKAKDFEVIIYEPLIKESTFMDFKIVDLDTLKKESDIILTNRYSSELEDVKEKVYTRDIFGRD

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Crispr_ID: NC_012438_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_4

755556-757154

Unclear

I-A

Consensus_repeat	Method
CTTTATATCCCACATAGTTCAGACAAAAC	CRISPRCasFinder
CTTTATATCCCACATAGTTCAGACAAAAC	CRT
GTTTTGTCTGAACTATGTGGGATATAAAG	PILER-CR

24 spacers

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

The CRISPR arrays of NC_012438_4

>merge|NC_012438|4|755556-757154|CRISPRCasFinder,CRT,PILER-CR
TTTTATATCCCACATAGTTCAGACAAAACAACTTTGGGGAATAAAGTATTCAAGAGGACAATATCTCTTTATATCCCACATAGTTCAGACAAAACAGAGAGAGTTTTTATACCATACAGTACGCCACTTCACTTTATATCCCACATAGTTCAGACAAAACTTCCAAGTAGTACATCTTCCATTCATATTTGACAAATCTTTATATCCCACATAGTTCAGACAAAACAAAAAATGAATAAAGATGTAAAAGAGTTTATCACATCTTTATATCCCACATAGTTCAGACAAAACTTATCAGAGTATGCTGTTCAAGCCACTCAGGCTTCCTTTATATCCCACATAGTTCAGACAAAACTGAACAATTTGGGATTACAGGCAGGCATAAAAGCAGACTTTATATCCCACATAGTTCAGACAAAACTAGGAACTATCAGTGATATTGTTTACAAAAGTGAAATCTTTATATCCCACATAGTTCAGACAAAACCCGAGTTCTGTTGACATCTCACAGCTATTTCCTTATGCCTTTATATCCCACATAGTTCAGACAAAACAGCTTGGGCTAAAACCTCCTTATTATTTAATTTATAGCTTTATATCCCACATAGTTCAGACAAAACTAAAGAGACTTTCACAGAAGCCCCGCCCGCAAGGAGCCTTTATATCCCACATAGTTCAGACAAAACACTGAGAGAGATGCTCTCAGTGATTAGAGAAGAATCCTTTATATCCCACATAGTTCAGACAAAACGCTCATTTATCAAACTTCTATTACGTGACTGGAGACTTTATATCCCACATAGTTCAGACAAAACTTGTTAGAGAGTTGATACAGATGATTTATTCACACTCCTTTATATCCCACATAGTTCAGACAAAACTTGAACTCGATAATGGATTGCCGCAAACAGTGAAGACTTTATATCCCACATAGTTCAGACAAAACAGCAATCTTTTTCAGAAGATTGCTTAACAAGGCCTACTTTATATCCCACATAGTTCAGACAAAACATATTTTGATATTTCAGTTCCTATAAGTGGAATATCTCTTTATATCCCACATAGTTCAGACAAAACGACAGCAAATATAATAGATAATTTCTGTATAGCTACTTTATATCCCACATAGTTCAGACAAAACTATATAGTAAAACATCTCTATATATATGATTACTTTCTTTATATCCCACATAGTTCAGACAAAACTTTATGGACTTTTATGGGTCTTTTATGGGTATTTTACTTTATATCCCACATAGTTCAGACAAAACTATAAAAACAGAGAATTTATAATTCCAAATGAACTTGACTTTATATCCCACATAGTTCAGACAAAACCTGTAACAAAATTCAAAGCTATATATGTGGCTATTGACTTTATATCCCACATAGTTCAGACAAAACATGAAAATAGTTAATTTTTACGATAGTGGATATCACCTTTATATCCCACATAGTTCAGACAAAACTTGGTTGAAACAAAAGAAAGCAAGTTGAAAGCCTATCTTTATATCCCACATAGTTCAGACAAAACACCGCTCTTTAAGTCAATCGCTTGCTTAAGCAAGCGCTTTATATCCCACATAGTTCAGACAAAAC

>NC_012438|4|4|755556-757154|CRISPRCasFinder
TTTTATATCCCACATAGTTCAGACAAAAC	AACTTTGGGGAATAAAGTATTCAAGAGGACAATATCT
CTTTATATCCCACATAGTTCAGACAAAAC	AGAGAGAGTTTTTATACCATACAGTACGCCACTTCA
CTTTATATCCCACATAGTTCAGACAAAAC	TTCCAAGTAGTACATCTTCCATTCATATTTGACAAAT
CTTTATATCCCACATAGTTCAGACAAAAC	AAAAAATGAATAAAGATGTAAAAGAGTTTATCACAT
CTTTATATCCCACATAGTTCAGACAAAAC	TTATCAGAGTATGCTGTTCAAGCCACTCAGGCTTC
CTTTATATCCCACATAGTTCAGACAAAAC	TGAACAATTTGGGATTACAGGCAGGCATAAAAGCAGA
CTTTATATCCCACATAGTTCAGACAAAAC	TAGGAACTATCAGTGATATTGTTTACAAAAGTGAAAT
CTTTATATCCCACATAGTTCAGACAAAAC	CCGAGTTCTGTTGACATCTCACAGCTATTTCCTTATGC
CTTTATATCCCACATAGTTCAGACAAAAC	AGCTTGGGCTAAAACCTCCTTATTATTTAATTTATAG
CTTTATATCCCACATAGTTCAGACAAAAC	TAAAGAGACTTTCACAGAAGCCCCGCCCGCAAGGAGC
CTTTATATCCCACATAGTTCAGACAAAAC	ACTGAGAGAGATGCTCTCAGTGATTAGAGAAGAATC
CTTTATATCCCACATAGTTCAGACAAAAC	GCTCATTTATCAAACTTCTATTACGTGACTGGAGA
CTTTATATCCCACATAGTTCAGACAAAAC	TTGTTAGAGAGTTGATACAGATGATTTATTCACACTC
CTTTATATCCCACATAGTTCAGACAAAAC	TTGAACTCGATAATGGATTGCCGCAAACAGTGAAGA
CTTTATATCCCACATAGTTCAGACAAAAC	AGCAATCTTTTTCAGAAGATTGCTTAACAAGGCCTA
CTTTATATCCCACATAGTTCAGACAAAAC	ATATTTTGATATTTCAGTTCCTATAAGTGGAATATCT
CTTTATATCCCACATAGTTCAGACAAAAC	GACAGCAAATATAATAGATAATTTCTGTATAGCTA
CTTTATATCCCACATAGTTCAGACAAAAC	TATATAGTAAAACATCTCTATATATATGATTACTTT
CTTTATATCCCACATAGTTCAGACAAAAC	TTTATGGACTTTTATGGGTCTTTTATGGGTATTTTA
CTTTATATCCCACATAGTTCAGACAAAAC	TATAAAAACAGAGAATTTATAATTCCAAATGAACTTGA
CTTTATATCCCACATAGTTCAGACAAAAC	CTGTAACAAAATTCAAAGCTATATATGTGGCTATTGA
CTTTATATCCCACATAGTTCAGACAAAAC	ATGAAAATAGTTAATTTTTACGATAGTGGATATCAC
CTTTATATCCCACATAGTTCAGACAAAAC	TTGGTTGAAACAAAAGAAAGCAAGTTGAAAGCCTAT
CTTTATATCCCACATAGTTCAGACAAAAC	ACCGCTCTTTAAGTCAATCGCTTGCTTAAGCAAGCG
CTTTATATCCCACATAGTTCAGACAAAAC

>NC_012438|4|4|755556-757154|CRT
TTTTATATCCCACATAGTTCAGACAAAAC	AACTTTGGGGAATAAAGTATTCAAGAGGACAATATCT
CTTTATATCCCACATAGTTCAGACAAAAC	AGAGAGAGTTTTTATACCATACAGTACGCCACTTCA
CTTTATATCCCACATAGTTCAGACAAAAC	TTCCAAGTAGTACATCTTCCATTCATATTTGACAAAT
CTTTATATCCCACATAGTTCAGACAAAAC	AAAAAATGAATAAAGATGTAAAAGAGTTTATCACAT
CTTTATATCCCACATAGTTCAGACAAAAC	TTATCAGAGTATGCTGTTCAAGCCACTCAGGCTTC
CTTTATATCCCACATAGTTCAGACAAAAC	TGAACAATTTGGGATTACAGGCAGGCATAAAAGCAGA
CTTTATATCCCACATAGTTCAGACAAAAC	TAGGAACTATCAGTGATATTGTTTACAAAAGTGAAAT
CTTTATATCCCACATAGTTCAGACAAAAC	CCGAGTTCTGTTGACATCTCACAGCTATTTCCTTATGC
CTTTATATCCCACATAGTTCAGACAAAAC	AGCTTGGGCTAAAACCTCCTTATTATTTAATTTATAG
CTTTATATCCCACATAGTTCAGACAAAAC	TAAAGAGACTTTCACAGAAGCCCCGCCCGCAAGGAGC
CTTTATATCCCACATAGTTCAGACAAAAC	ACTGAGAGAGATGCTCTCAGTGATTAGAGAAGAATC
CTTTATATCCCACATAGTTCAGACAAAAC	GCTCATTTATCAAACTTCTATTACGTGACTGGAGA
CTTTATATCCCACATAGTTCAGACAAAAC	TTGTTAGAGAGTTGATACAGATGATTTATTCACACTC
CTTTATATCCCACATAGTTCAGACAAAAC	TTGAACTCGATAATGGATTGCCGCAAACAGTGAAGA
CTTTATATCCCACATAGTTCAGACAAAAC	AGCAATCTTTTTCAGAAGATTGCTTAACAAGGCCTA
CTTTATATCCCACATAGTTCAGACAAAAC	ATATTTTGATATTTCAGTTCCTATAAGTGGAATATCT
CTTTATATCCCACATAGTTCAGACAAAAC	GACAGCAAATATAATAGATAATTTCTGTATAGCTA
CTTTATATCCCACATAGTTCAGACAAAAC	TATATAGTAAAACATCTCTATATATATGATTACTTT
CTTTATATCCCACATAGTTCAGACAAAAC	TTTATGGACTTTTATGGGTCTTTTATGGGTATTTTA
CTTTATATCCCACATAGTTCAGACAAAAC	TATAAAAACAGAGAATTTATAATTCCAAATGAACTTGA
CTTTATATCCCACATAGTTCAGACAAAAC	CTGTAACAAAATTCAAAGCTATATATGTGGCTATTGA
CTTTATATCCCACATAGTTCAGACAAAAC	ATGAAAATAGTTAATTTTTACGATAGTGGATATCAC
CTTTATATCCCACATAGTTCAGACAAAAC	TTGGTTGAAACAAAAGAAAGCAAGTTGAAAGCCTAT
CTTTATATCCCACATAGTTCAGACAAAAC	ACCGCTCTTTAAGTCAATCGCTTGCTTAAGCAAGCG
CTTTATATCCCACATAGTTCAGACAAAAC

>NC_012438|4|4|755557-757154|PILER-CR
TTTATATCCCACATAGTTCAGACAAAACA	ACTTTGGGGAATAAAGTATTCAAGAGGACAATATCTC
TTTATATCCCACATAGTTCAGACAAAACA	GAGAGAGTTTTTATACCATACAGTACGCCACTTCAC
TTTATATCCCACATAGTTCAGACAAAACT	TCCAAGTAGTACATCTTCCATTCATATTTGACAAATC
TTTATATCCCACATAGTTCAGACAAAACA	AAAAATGAATAAAGATGTAAAAGAGTTTATCACATC
TTTATATCCCACATAGTTCAGACAAAACT	TATCAGAGTATGCTGTTCAAGCCACTCAGGCTTCC
TTTATATCCCACATAGTTCAGACAAAACT	GAACAATTTGGGATTACAGGCAGGCATAAAAGCAGAC
TTTATATCCCACATAGTTCAGACAAAACT	AGGAACTATCAGTGATATTGTTTACAAAAGTGAAATC
TTTATATCCCACATAGTTCAGACAAAACC	CGAGTTCTGTTGACATCTCACAGCTATTTCCTTATGCC
TTTATATCCCACATAGTTCAGACAAAACA	GCTTGGGCTAAAACCTCCTTATTATTTAATTTATAGC
TTTATATCCCACATAGTTCAGACAAAACT	AAAGAGACTTTCACAGAAGCCCCGCCCGCAAGGAGCC
TTTATATCCCACATAGTTCAGACAAAACA	CTGAGAGAGATGCTCTCAGTGATTAGAGAAGAATCC
TTTATATCCCACATAGTTCAGACAAAACG	CTCATTTATCAAACTTCTATTACGTGACTGGAGAC
TTTATATCCCACATAGTTCAGACAAAACT	TGTTAGAGAGTTGATACAGATGATTTATTCACACTCC
TTTATATCCCACATAGTTCAGACAAAACT	TGAACTCGATAATGGATTGCCGCAAACAGTGAAGAC
TTTATATCCCACATAGTTCAGACAAAACA	GCAATCTTTTTCAGAAGATTGCTTAACAAGGCCTAC
TTTATATCCCACATAGTTCAGACAAAACA	TATTTTGATATTTCAGTTCCTATAAGTGGAATATCTC
TTTATATCCCACATAGTTCAGACAAAACG	ACAGCAAATATAATAGATAATTTCTGTATAGCTAC
TTTATATCCCACATAGTTCAGACAAAACT	ATATAGTAAAACATCTCTATATATATGATTACTTTC
TTTATATCCCACATAGTTCAGACAAAACT	TTATGGACTTTTATGGGTCTTTTATGGGTATTTTAC
TTTATATCCCACATAGTTCAGACAAAACT	ATAAAAACAGAGAATTTATAATTCCAAATGAACTTGAC
TTTATATCCCACATAGTTCAGACAAAACC	TGTAACAAAATTCAAAGCTATATATGTGGCTATTGAC
TTTATATCCCACATAGTTCAGACAAAACA	TGAAAATAGTTAATTTTTACGATAGTGGATATCACC
TTTATATCCCACATAGTTCAGACAAAACT	TGGTTGAAACAAAAGAAAGCAAGTTGAAAGCCTATC
TTTATATCCCACATAGTTCAGACAAAACA	CCGCTCTTTAAGTCAATCGCTTGCTTAAGCAAGCGC
TTTATATCCCACATAGTTCAGACAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041675819.1\|760932_761199_+\|cupin-domain-containing-protein	unknown	unknown	gnl\|CDD\|380355
NC_012438.1\|WP_012674440.1\|753737_754250_+\|CRISPR-associated-protein-Cas4	cas4	pfam01930_cas4_CAS-I	gnl\|CDD\|366863
NC_012438.1\|WP_012673648.1\|759777_760182_+\|ATP-synthase-F1-subunit-epsilon	unknown	unknown	gnl\|CDD\|213395
NC_012438.1\|WP_012673661.1\|748118_749840_+\|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1	cas8b2	cd09665_cas8b2_CAS-I-B	gnl\|CDD\|187796
NC_012438.1\|WP_012673502.1\|751473_753741_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|273707
NC_012438.1\|WP_012673773.1\|762841_763678_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_041676018.1\|760183_760927_+\|methyltransferase	unknown	unknown	gnl\|CDD\|226608
NC_012438.1\|WP_012674559.1\|763907_764777_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|316753
NC_012438.1\|WP_012674401.1\|747321_748119_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	cd09652_cas6_CAS-I:CAS-III	gnl\|CDD\|187783
NC_012438.1\|WP_012674912.1\|755264_755531_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_012438.1\|WP_012673463.1\|757527_757911_-\|rhodanese-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|238089
NC_012438.1\|WP_012673901.1\|746677_747277_+\|serine/threonine-protein-kinase	unknown	unknown	gnl\|CDD\|225023
NC_012438.1\|WP_012674875.1\|746233_746674_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674829.1\|765763_767242_-\|NAD(P)-binding-protein	unknown	unknown	gnl\|CDD\|274272
NC_012438.1\|WP_012674112.1\|749832_750759_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|274215
NC_012438.1\|WP_012675045.1\|750761_751472_+\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cd09658_cas5_CAS-I-B	gnl\|CDD\|273860
NC_012438.1\|WP_012674475.1\|757907_759716_-\|aspartate--tRNA-ligase	unknown	unknown	gnl\|CDD\|234775
NC_012438.1\|WP_012673943.1\|754266_755262_+\|type-I-B-CRISPR-associated-endonuclease-Cas1	cas1	cd09722_cas1_CAS-I-B	gnl\|CDD\|274695
NC_012438.1\|WP_012673900.1\|764796_765789_-\|histidine-kinase	unknown	unknown	gnl\|CDD\|225814
NC_012438.1\|WP_012674213.1\|761366_762821_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379050

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_041675819.1\|760932_761199_+\|cupin-domain-containing-protein	gnl\|CDD\|380355	cd02226, cupin_YdbB-like, Bacillus subtilis YdbB and related proteins, cupin domain. This family includes bacterial proteins homologous to YdbB, a Bacillus subtilis protein of unknown function. It also includes protein Nmb1881 From Neisseria meningitidis, also of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.	2.42044e-09
NC_012438.1\|WP_012674440.1\|753737_754250_+\|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.	7.4036e-62
NC_012438.1\|WP_012673648.1\|759777_760182_+\|ATP-synthase-F1-subunit-epsilon	gnl\|CDD\|213395	cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta, and epsilon subunits with a stoichiometry of 3:3:1:1:1. Alpha and beta subunit form the globular catalytic moiety, a hexameric ring of alternating subunits. Gamma, delta and epsilon subunits form a stalk, connecting F1 to F0, the integral membrane proton translocating domain. In bacteria, which is lacking a eukaryotic epsilon subunit homolog, this subunit is called the epsilon subunit.	5.83132e-31
NC_012438.1\|WP_012673661.1\|748118_749840_+\|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.	1.23401e-127
NC_012438.1\|WP_012673502.1\|751473_753741_+\|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.	8.73602e-65
NC_012438.1\|WP_041676018.1\|760183_760927_+\|methyltransferase	gnl\|CDD\|226608	COG4123, COG4123, Predicted O-methyltransferase [General function prediction only].	2.078e-69
NC_012438.1\|WP_012674559.1\|763907_764777_+\|hypothetical-protein	gnl\|CDD\|316753	pfam14261, DUF4351, Domain of unknown function (DUF4351). This domain is found in bacteria, and is approximately 60 amino acids in length.	0.0029035
NC_012438.1\|WP_012674401.1\|747321_748119_+\|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.	9.33983e-29
NC_012438.1\|WP_012674912.1\|755264_755531_+\|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.	1.48318e-27
NC_012438.1\|WP_012673463.1\|757527_757911_-\|rhodanese-like-domain-containing-protein	gnl\|CDD\|238089	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.	1.39568e-35
NC_012438.1\|WP_012674475.1\|757907_759716_-\|aspartate--tRNA-ligase	gnl\|CDD\|234775	PRK00476, aspS, aspartyl-tRNA synthetase; Validated.	0
NC_012438.1\|WP_012674829.1\|765763_767242_-\|NAD(P)-binding-protein	gnl\|CDD\|274272	TIGR02733, similar_to_to_phytoene_dehydrogenase, C-3',4' desaturase CrtD. Members of this family are slr1293, a carotenoid biosynthesis protein which was shown to be the C-3',4' desaturase (CrtD) of myxoxanthophyll biosynthesis in Synechocystis sp. strain PCC 6803, and close homologs (presumed to be functionally equivalent) from other cyanobacteria, where myxoxanthophyll biosynthesis is either known or expected. This enzyme can act on neurosporene and so presumably catalyzes the first step that is committed to myxoxanthophyll. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	8.64087e-58
NC_012438.1\|WP_012674112.1\|749832_750759_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|274215	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP. 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 clade is a member of the DevR family (TIGR01875) and includes the DevR protein of Myxococcus xanthus, a protein whose expression appears to be regulated through a number of means, including both location and autorepression; DevR mutants are incapable of fruiting body development.	1.5474e-77
NC_012438.1\|WP_012675045.1\|750761_751472_+\|type-I-B-CRISPR-associated-protein-Cas5	gnl\|CDD\|273860	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP. CRISPR is a term for Clustered Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR associated) proteins. This family is represented by TM1800 from Thermotoga maritima. It is related to TIGR01868 (CRISPR-associated protein, CT1976 family).	2.26394e-54
NC_012438.1\|WP_012673901.1\|746677_747277_+\|serine/threonine-protein-kinase	gnl\|CDD\|225023	COG2112, COG2112, Predicted Ser/Thr protein kinase [Signal transduction mechanisms].	1.35773e-31
NC_012438.1\|WP_012673943.1\|754266_755262_+\|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.	8.26542e-164
NC_012438.1\|WP_012673900.1\|764796_765789_-\|histidine-kinase	gnl\|CDD\|225814	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms].	4.58637e-33
NC_012438.1\|WP_012674213.1\|761366_762821_+\|ATP-binding-protein	gnl\|CDD\|379050	pfam13175, AAA_15, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	9.14571e-33

>NC_012438.1|WP_012674912.1|755264_755531_+|CRISPR-associated-endonuclease-Cas2
MFVIITYDITDENRLNKVRKILRKYLFWTQLSTFEGEISKGKLAQCLSEVKEVISPSEDSVYVYQVENPKNLNKKVLGIEKSFLDNFL
>NC_012438.1|WP_012673943.1|754266_755262_+|type-I-B-CRISPR-associated-endonuclease-Cas1
MPRNYYINSNGRIRRKENTVYFETEKDGESLKTPLPINDIDTIFIFGEVDINTKAINYLSQYDIPMHFFNYYGYYSGSFLPRKKNVSGSLLVEQVKHHIDDSKRQMLAISFIEGAVHHILRNLRKSGISVENFQNIEKDLLPKIFETKTIEELMAIEGNIREHYYQLFNTVIKNKDFFIEKREKRPPTNPINALISFGNSIMYNTVLTEIYRTQLDPTISYLHSPQEKRFSLSLDIAEIFKPFIIDPLIFNLIKTGQITIDDFDKDLNYTYLNENGRKKFLKAYEERLSKTVKHRRLKRNVSYRQLIRLECYKLIKHLIGDEIYKPFKAWW
>NC_012438.1|WP_012674440.1|753737_754250_+|CRISPR-associated-protein-Cas4
MIEDINFNRLKVNGIKVNYFYICHRKLWLFDRKITMEDKSDKVLLGALLHMDSYERERQKEVLIDNLISIDILDGVNIKEVKYSDKMEKADKMQVLYYLYYLKNLGIEKQGIINYPKQKKREFIQLTEEAEKELEAVLIEINKILKQEKPPPVIDAAYCQKCAYFEFCYG
>NC_012438.1|WP_012673502.1|751473_753741_+|CRISPR-associated-helicase/endonuclease-Cas3
MEEFYAKLYFQDGKAFPETLREHTENLLEELERIKKIYGKELESIGANEDFWNALKIACLFHDLGKISSHFQRKIKRYIGEDVKISSGTKEEIPHNYLSGIFLFNSSIANVLNNEFFDYVLYSVLFHHNREISFSVDYMDSVFKRDLKPKLCLLSWLSKFNIDLSNINEESPYFVYDEIKSYMNNSDKKISQIKKNKIFILFKGLLHRLDHSASAHLPVEENRIHNVDEKLISYLSKKDNFKGLKPFQEKAKELRNKNVLLTASTGIGKTEFAVNWIGEDKAFYTLPVRVSVNAMYDRFVSIFESDKEKIGLLHSDALFYGMESNETIDEFLSLEEHIIRTQTSRQFSMPITITTADQLFTSVLKYPGYEKIYATLMYSKVVLDEPQSYSPDTLAIIIKGLQEIAYYGGKFCFMSATIHPFINEYLKDFVEELDPVFNSEKKHKIKLENRTIDELSKEIISQFNQGKKVLVITNTVKKAQELYKILKEIENLNVKLLHSLFIQIDRNEKEKQIKSPTEPVIWISTQLVEASLDIDYDIMFAEISTLDSLIQRMGRVYRKQGRIINESDNANIVIATKEPSDKGKIYNNEIISFTLEALEEFNNKILSDEEKQNLMKKVYEIEKIKNTSFYKNFIKNMELLNAGFKTDTKGEAQQLFRGILNINVIPEEVYQENLDEIEKAIEIALDKSKKYSEKIQAFYTLNKFTVSMPFYKLKNIIPTQITPDKFRNKIFTVNFEYDSEFGLDISKDPELGEIL
>NC_012438.1|WP_012675045.1|750761_751472_+|type-I-B-CRISPR-associated-protein-Cas5
MKLLKIKAYQIFANYRKPMSFNFWDSYPLPPLSTVRGWFHTTIGVNQYIPIAMSIQGKFSSVVHDLQTLIKFDRKRDKERGIFLEGFNKVFSKSPTYVVNIYDISLTIYLKAKEEYLKLFKENLLKNEYPSLGRKEDLVRIDYIDFIEPQLRKFSNIERFLIKSGVYLNKKTADLFGLSGINYRMNFKYDKELLDKTGLRYFEKKDVVYVDSGTLKNGEILFDEADQAIIDLIGDE
>NC_012438.1|WP_012674112.1|749832_750759_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSNLKPKGLTVSVIFDAMSLNYGESTGHISELKKLSRSGEFLSYASRQAIRYDIYRMLKELFSIDSDKEDPLTSNQNVVQFKPEANIKDYIEADLFGYMKTEKNRGALTRSAVVRITPAISLEPMFLDVEFGANLNFAQRAKTDPDLFQFEHHLSLYSYTITIELDRVGEDPNDNISLEPFEKAKRIGMVLDVLKVLNRNIKGRMESLNPLFTIGGVYNVKNPFFLGRLKIKFNPETRKYLLETPVISSVLETSFNGENVRDSSHIGIVSGYWENEEEIRNLLLKDKIHNINDFFESLKKQVNEYYGV
>NC_012438.1|WP_012673661.1|748118_749840_+|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1
MERVYLGDWLYNAGILGFLNINSHLWELNTIGDKQELKSKDESLLKFGENYIEFDIQIFDGFSERFFNYAFNQYGRYENEKKNFKEYIQDLESLKNNKILDYLNKKYFSNKKENAEILEEIPIIIFNKFEKILEGFKLLKDKLGSIPSKNEIKKDVNLLMNILKKAIEIMEKDKQEFWESDVRIYLRNIYGQKSFLNKSVNTNRFEKFYKDFEELLKEKKVKKDKKFLCISCMERKAKKDTIFDTGISKFYGLNPDVINFSWNFNPKIPLCEICEIIYFSYFAGLTLIQKDGKRAFYFVNSDTSIIDLVSNNRLLNGVLKPDLTENILLNFFTQLVLESSYQKAYFTVQNISVLELDLNNEIMPKVYSFNLSRKKAEFLKESKTKENLKQLSKDYYKINRKKGELKIYILPEVISLILENKLYFNYLNKILRMFIAYQNGSERYETNISPYKIQILNLVVSEFIKNIGGKTMSVSEKEIWVIYQEGKKLANILSEKKAENKIKSIAYKLLNSLRIGNSQQFMDILLRVYMAYGEVIPSSFIKTLQNKEDFYSIGYSFLNGLLSKQNKEVESDE
>NC_012438.1|WP_012674401.1|747321_748119_+|CRISPR-associated-endoribonuclease-Cas6
MRIKITLETPMIPFLYRHRILSLIKEALKKSDKDYKDFLYKNKITKPFTFNLVPPLNKEIKEGEIQIDNNFTVKDYIFYSKDSYFNLFISSADYRFVITLYNGLKNLKTFDFSSYENMLVNGEKVILHIKRVNVLNEKPIRGNSVVFKTNAPIIVEDKNDNPVLFSDKNFEKELNEITDRILSSPHIKGKGLEKPLKFEPIKMGKQVIKHTLKSFREKTGKPVMYLTGNTGVFRLSGHPKDLELLYKIGIGNRTGQGFGMVEVLE
>NC_012438.1|WP_012673901.1|746677_747277_+|serine/threonine-protein-kinase
MVKFSDIKPKIENPTKIGEGWRAVVYRGKFEGQDLAFKVASEDIHKHPIQKEGIILQQVNKYCIGPVFKFSGEDFIAYNYIEGKPLNEVLSKNNYQHLITQLLDQSFILDTLKIDKGEMHRPYANVLVDEDLKLYLIDFERATKSLKPKNVLNVIQFISRGLDNKEDLIKLLKIYKFHQSQENFEKLKDYIFTVICQKI
>NC_012438.1|WP_012674875.1|746233_746674_+|hypothetical-protein
MLRKITLTIIFVLSALTLFFLLKGDTKYTITFGFLDLTVIVFSILVWFNDKYYNEQISERIVSFPKKEMIKDILQKQANMLRFDKVEELPDGYKVYKGKQLVIDATFEKDENGNLLQIDGKYIVKLKAPEYVLHNIDNEIWSHIGK
>NC_012438.1|WP_012673463.1|757527_757911_-|rhodanese-like-domain-containing-protein
MRKILFTILLSFVFAFAYQDLNSKAFYEMIQKEKNVIILDVRTPQEYEKDGHIPGSILIPVQVLPQYIRELEKFKDKKILVYCRSGNRSAAASRFLEQNGFKNVYNLKYGIIDWKRNNLPVEYGMKK
>NC_012438.1|WP_012674475.1|757907_759716_-|aspartate--tRNA-ligase
MTDQLRDFKRDYYCGDLNEGNIGEEVRLLGWVDTVRDHGGVLFINLRDREGIVQVVFDPSKISHEVYNKAKKLKSEYVIGVKGIVSRRPVGTENSKMKTGNIEVLAHYLIILNTSEVLPFQIEDNIKVSEEVRLKYRYLDLRRPSMQRNIILRHEVYQAVREFLVGNGFIEVETPMLTKSTPEGARDFLVPSRLEKGKFYALPQSPQLFKQILMVAGLERYFQIVKCFRDEDLRADRQPEFTQIDLEMSFVSEEDVMSLSEALIQHVYKKVLGIDIKIPFKRMSYEEAINKYGTDKPDLRYGLELIDITDLALEVEFKVFNDVAKSGGLVKGINVKGGAKFSRKEIDDLTEYAKKFGAKGMAWIKLENGEATSPILKFFTDDQKQRLFQKMQAQDGDLLVFIADKKEITHRVLGFLRKHLAEKLNLIDKNKLEFLWVVDFPLFEWDEEENRLVAIHHPFTSPKDEDIEKLDQALENPEIALSFKSKAYDMVLNGEEIGGGSIRIHTPYLQQKIFKLLNISEEEAKEKFGFLIEALSYGAPPHGGLAFGLDRILALMTGSESIRDVIAFPKTQKGVCPLTGAPDYVEEKQLKELGIKIEEEEE
>NC_012438.1|WP_012673648.1|759777_760182_+|ATP-synthase-F1-subunit-epsilon
MYRLDVVTPLGNVFNGEVYQTVITTADGEIGILENHMLLLTNITPGKLRIEKANGEVKEMAVTYGILDVAGDKVIALVEEVYNLDEIDVENEKRLLEEANSKLQSENLTEEEKSHYEKQKHRAETLLNLATAKV
>NC_012438.1|WP_041676018.1|760183_760927_+|methyltransferase
MNLEEDEDLSPFVRGKVFIVQKKDGYRFNIDSLLLSDFVNIKSSGKLIDLGTGSGIILILLSLKYKNIQFYGLEVQQDLYQLAQKNIKLNNVKADLKLGDVKEVKKFYEHQYFDYVVINPPYFKSGDYKNTQEKIARSEVLATLEDFIKASWYLLKNKGKLFMIVPCERFSETVKYLKNYNLQPKRYRFIHPSINEKATHFMVEAIKQAKEGGEIVESPLIVYENPKEKKYTDYVWSLLENYPNHRL
>NC_012438.1|WP_041675819.1|760932_761199_+|cupin-domain-containing-protein
MMSIQELVKKLENMGYKNIYTWCDDPGTYYDWHTHKYDEVRLVYKGSIVIGTEEGVYHLKEGDILEVKAGTRHWAKTEEGVCYLCGSK
>NC_012438.1|WP_012674213.1|761366_762821_+|ATP-binding-protein
MKLRKINIENFRCYKDETEVEIEDLTVFVGANDSGKSSILEALDIFFNEGRAEIRFTEDDINIHARMEGKHDVKITCVFEDIPEQFLRRLEENNIPINDSSITISKTFGKNNKTFLNGEELSKKLIGEIKDYLPIYGLFKVDRTNTDDNPEIKDPLMFAVEKSLKEQEIKYKLQEVAEKIKKAIEDVANGTLDKLKKLNGNIATELNVYIPDIEELKWRDVFKRIGIYSDKGILLNKRGSGVRRLILLSFFLFEAERKRYERHTDEIEISTIYAIEEPETSLHPDQQKQFINSLIELSSNEKVQVLLTTHSPYIAKLIPVNSLRFIDQGYQYTLPKVSSYKEDNNILLNIAKRLGIHPINTKVVIFVEGNTDKKFLININENIKELKDLIHLNSEIENNTITIIPLNGSNLIDWINAHYLKGSGLLEFHLYDNDRKDYQEIIEKVNDRNDGSIGLTTSMREIENYIHWDLIEEEFNIKITDNIR
>NC_012438.1|WP_012673773.1|762841_763678_-|hypothetical-protein
MQLEKFYNILLKNFQSFKVSFYKNTAKSNAGRKPKITDEEIAAVFILSYITGMPVLKIARQFIDDSIKSYHIFRKSRIKRIYELLRIYLQMRILSVIIEVLVSNKKPRLIVDGTILPVANVNRAKTQRIKRFNGKKFWVRRKRNLYSQHYKKRVKFEEIYYGVLVMIICDTKGRVYDIWFHPASYHEVKSFRLRAKTSIWFKRLISLFEVIGDKGYRGCENVIVCETKEDKAQRQIIESVFSRLKQFNALSRWRKGITLLSYLYAYAIGYSFFRYCEV
>NC_012438.1|WP_012674559.1|763907_764777_+|hypothetical-protein
MEKIKTDLLLKHLFKNPATKLIEIILGKKVDWQLLQDTDLKIVKNREADLVVKLEDNTILHIEIQSTNDPSMPYRMFEYFYLITDKYKPKDLIQVCIYIGKEPLKMSDKIQFSDWTYRYRLIDMKDIPCKELVASPNITDKLLAGLCKIEDPKFYVENVIKEIKNANPKDRKELFTLFLEISKIRNNIEEEIRSYITQEDFEMPITIEWTREEIESYPVLRDVLKIGKEEGFKEGLQKGLKDSIIESLELKFGELPEEIKAKINSTDDIEALKEMRKKAILIQSLEEFT
>NC_012438.1|WP_012673900.1|764796_765789_-|histidine-kinase
MKYFIDISKQDWLVVFLFAIVFGGVLGSFITVLIGIESLYQGLVTGVIFGLSIFFFSFVLINLSNKYVLKHFDEKFWEFISLSFSFLAGFLGSVVGFCVVKGFNIVEINFPQNILILSFTLIGILTALLGYLLYWIVNIRKIKSDLEKSLIVARLKSLEYQINPHFLFNTLNVLAELTHINPQLAEKTILTFAKYLREVIDEESLITVERELSIVKNFVFIQKVRFPEINVHYNIDPSILEVKIPKLSIQILVENAIKHGIKSRGNIWINGYRQNGKVVIEVIDDGEGFKEIKEGTGLQNLKNRLKHLVNGSLSYYREDNKTVFKIEFNG
>NC_012438.1|WP_012674829.1|765763_767242_-|NAD(P)-binding-protein
MQDYIVVGGGIGGVVAYSILKKLGKKVLLFEKLDYLGGCAGTFKKDGLFYNVGASTLVGLDENLPLDILLKILDIDKNTIPVLPIDPAIVVYTKDKVINRYKDFERAFEEIDKNFPYKNNKNLWNRVKKVSTNNWQNIYKLLPFNPKNYPDLLKKVITNLDYFLSGIKDSLMTAEKVIRHYIPDPDEDYKAFLNSQILMATQCYWDEVNFSFASMGLTYPNLSNYYVKGGMSNFLESIVKDDKNVLKKVKVKSISRVRDIFEVKTNKGEFYTKKVILNRTIWDYCELLDESLKDSFCEVSKKKYSKLWSSATLYFAVKDENNLLSKHHYQILHDKNPYTDSYSFFVSVADPCDSVEGYKSITISTHCKIELWENLSKEEYTEKKEKLKEFILENLYKKIPQFRMLPKTDVMIGTPNTFNRYTGRYKGTVGGIPLRRKYTMLNYPMGITPIKGLYLVGDSVFPGQGYPGVTVGVFNLLLQVEEDFREVFYRYI

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Crispr_ID: NC_012438_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_5

788247-788740

TypeIII

Consensus_repeat	Method
GTTTCAATTCCTCATAGGCACTCTAAAAAC	CRISPRCasFinder
GTTTCAATTCCTCATAGGCACTCTAAAAAC	CRT
TTTTGTCATGTTTTTAGAGTGCCTATGA-GGAATTGAAAC	PILER-CR
GTTTTTAGAGTGCCTATGA-GGAATTGAAAC	PILER-CR

7 spacers

cas6,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5,cas2,cas3,cas5,cas7,cas8b1

The CRISPR arrays of NC_012438_5

>merge|NC_012438|5|788247-788740|CRISPRCasFinder,CRT,PILER-CR,PILER-CR
ATTTCAATTCCTCATAGGCACTCTAAAAACATTCCAGAAAAGAAGCTTGTTTCATTTGTTGAATTCCGTTTCAATTCCTCATAGGCACTCTAAAAACACATTATTCGCATAAAGACATTATTCGAATATTCGCAGTTTCAATTCCTCATAGGCACTCTAAAAACTTATGAGAAAATAAAAGCTTTGGAAAGATGAAGAATAGTTTCAATTCCTCATAGGCACTCTAAAAACGTTTTTCGTTAGTATGTATATATTAATTATAATTATGTTTCAATTCCTCATAGGCACTCTAAAAACAAGTCATCTCCTACTAAGTAAAGAGTATTATCGTTTCAATTCCTCATAGGCACTCTAAAAACTGTTATAATAGATTATAACATTGCTTGACAAAAAGTCGTTTCAATTCCTCATAGGCACTCTAAAAACTATGTTTGTGTATTTATATTTTTTTTAATTATAATTACGTTTCAATTCCTCATAGGCACTCTAAAAAC

>NC_012438|5|5|788247-788740|CRISPRCasFinder
ATTTCAATTCCTCATAGGCACTCTAAAAAC	ATTCCAGAAAAGAAGCTTGTTTCATTTGTTGAATTCC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	ACATTATTCGCATAAAGACATTATTCGAATATTCGCA
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TTATGAGAAAATAAAAGCTTTGGAAAGATGAAGAATA
GTTTCAATTCCTCATAGGCACTCTAAAAAC	GTTTTTCGTTAGTATGTATATATTAATTATAATTAT
GTTTCAATTCCTCATAGGCACTCTAAAAAC	AAGTCATCTCCTACTAAGTAAAGAGTATTATC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TGTTATAATAGATTATAACATTGCTTGACAAAAAGTC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TATGTTTGTGTATTTATATTTTTTTTAATTATAATTAC
GTTTCAATTCCTCATAGGCACTCTAAAAAC

>NC_012438|5|5|788247-788740|CRT
ATTTCAATTCCTCATAGGCACTCTAAAAAC	ATTCCAGAAAAGAAGCTTGTTTCATTTGTTGAATTCC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	ACATTATTCGCATAAAGACATTATTCGAATATTCGCA
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TTATGAGAAAATAAAAGCTTTGGAAAGATGAAGAATA
GTTTCAATTCCTCATAGGCACTCTAAAAAC	GTTTTTCGTTAGTATGTATATATTAATTATAATTAT
GTTTCAATTCCTCATAGGCACTCTAAAAAC	AAGTCATCTCCTACTAAGTAAAGAGTATTATC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TGTTATAATAGATTATAACATTGCTTGACAAAAAGTC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TATGTTTGTGTATTTATATTTTTTTTAATTATAATTAC
GTTTCAATTCCTCATAGGCACTCTAAAAAC

>NC_012438|5|5|788248-788421|PILER-CR
TTTCAATTCCTCATAGGCACTCTAAAAACATTCCAGAAAAG	AAGCTTGTTTCATTTGTTGAATTCCGTT
TCAATTCCTCATAGGCACTCTAAAAACACATTATTCGCATA	AAGACATTATTCGAATATTCGCAGTTTCAATTCCTCA
TAGGCACTCTAAAAACTTATGAGAAAATAAAAGCTTTGGAAAGATGAAGAATAGTTTCAATTCCTCATAGGCACTCTAAAAACGTTTTTCGTTAGTATGTATATATTAATTATAATTATGTTTCAATTCCTCATAGGCACTCTAAAAAC	AAGTCATCTCCTACTAAGTAAAGAGTATTATC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TGTTATAATAGATTATAACATTGCTTGACAAAAAGTC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TATGTTTGTGTATTTATATTTTTTTTAATTATAATTAC


>NC_012438|5|6|788514-788740|PILER-CR
	AAGCTTGTTTCATTTGTTGAATTCCGTT
TCAATTCCTCATAGGCACTCTAAAAACACATTATTCGCATA	AAGACATTATTCGAATATTCGCAGTTTCAATTCCTCA
TAGGCACTCTAAAAACTTATGAGAAAATAAAAGCTTTGGAAAGATGAAGAATAGTTTCAATTCCTCATAGGCACTCTAAAAACGTTTTTCGTTAGTATGTATATATTAATTATAATTATGTTTCAATTCCTCATAGGCACTCTAAAAAC	AAGTCATCTCCTACTAAGTAAAGAGTATTATC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TGTTATAATAGATTATAACATTGCTTGACAAAAAGTC
GTTTCAATTCCTCATAGGCACTCTAAAAAC	TATGTTTGTGTATTTATATTTTTTTTAATTATAATTAC
GTTTCAATTCCTCATAGGCACTCTAAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012673793.1\|778713_778971_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673562.1\|798177_799131_+\|biotin--[acetyl-CoA-carboxylase]-ligase	unknown	unknown	gnl\|CDD\|223417
NC_012438.1\|WP_012674258.1\|794542_796246_-\|TIGR02556-family-CRISPR-associated-protein	cas8b1	cd09672_cas8b1_CAS-I-B	gnl\|CDD\|274199
NC_012438.1\|WP_012674030.1\|779365_780196_-\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	unknown
NC_012438.1\|WP_041676032.1\|799286_799634_-\|type-II-toxin-antitoxin-system-PemK/MazF-family-toxin	unknown	unknown	gnl\|CDD\|367091
NC_012438.1\|WP_012674815.1\|780597_781695_-\|hypothetical-protein	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012438.1\|WP_012675090.1\|785357_786440_-\|CRISPR-associated-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	gnl\|CDD\|187792
NC_012438.1\|WP_012674024.1\|775917_776172_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673588.1\|790620_792909_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124
NC_012438.1\|WP_187145717.1\|796402_798178_+\|elongation-factor-4	unknown	unknown	gnl\|CDD\|235462
NC_012438.1\|WP_049751976.1\|800033_800330_-\|PIN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350244
NC_012438.1\|WP_012674005.1\|781698_785370_-\|CRISPR-associated-protein-Csx11	cas10	cd09701_cas10_CAS-III-C	gnl\|CDD\|274257
NC_012438.1\|WP_012674618.1\|788987_789254_-\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_012438.1\|WP_012674716.1\|780197_780617_-\|hypothetical-protein	cmr5gr11	mkCas0117_cmr5gr11_CAS-III-C	unknown
NC_012438.1\|WP_012674044.1\|792917_793607_-\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cls001430_cas5_CAS-I-B	gnl\|CDD\|131641
NC_012438.1\|WP_012673859.1\|787449_788196_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	COG1583_cas6_CAS-I:CAS-III:CAS-IV	gnl\|CDD\|224499
NC_012438.1\|WP_012674368.1\|799645_799897_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012675035.1\|779019_779283_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674792.1\|793608_794556_-\|type-I-B-CRISPR-associated-protein-Cas7/Csh2	cas7	cd09690_cas7_CAS-I-B	gnl\|CDD\|274217
NC_012438.1\|WP_012674782.1\|776259_778587_-\|PBP1A-family-penicillin-binding-protein	unknown	unknown	gnl\|CDD\|227342

Protein	Cas_name	Cas_description	E-value	Identity	Coverage
NC_012438.1\|WP_012674030.1\|779365_780196_-\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	1.6e-77	255.4	2.3
NC_012438.1\|WP_012674258.1\|794542_796246_-\|TIGR02556-family-CRISPR-associated-protein	cas8b1	cd09672_cas8b1_CAS-I-B	3.2e-223	737.1	43.8
NC_012438.1\|WP_012674716.1\|780197_780617_-\|hypothetical-protein	cmr5gr11	mkCas0117_cmr5gr11_CAS-III-C	7.3e-56	183.5	14.1
NC_012438.1\|WP_012674005.1\|781698_785370_-\|CRISPR-associated-protein-Csx11	cas10	cd09701_cas10_CAS-III-C	0	1035.3	79.7
NC_012438.1\|WP_012674815.1\|780597_781695_-\|hypothetical-protein	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	3.2e-46	152.8	0.0
NC_012438.1\|WP_012675090.1\|785357_786440_-\|CRISPR-associated-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	3.5e-88	290.1	4.2
NC_012438.1\|WP_012674044.1\|792917_793607_-\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cls001430_cas5_CAS-I-B	4.2e-46	152.2	4.2
NC_012438.1\|WP_012673588.1\|790620_792909_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	1.1e-57	190.5	29.8
NC_012438.1\|WP_012674618.1\|788987_789254_-\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	2.7e-28	92.7	2.3
NC_012438.1\|WP_012674792.1\|793608_794556_-\|type-I-B-CRISPR-associated-protein-Cas7/Csh2	cas7	cd09690_cas7_CAS-I-B	1.2e-81	268.9	2.2
NC_012438.1\|WP_012673859.1\|787449_788196_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	COG1583_cas6_CAS-I:CAS-III:CAS-IV	1.6e-53	176.8	13.6

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673562.1\|798177_799131_+\|biotin--[acetyl-CoA-carboxylase]-ligase	gnl\|CDD\|223417	COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism].	2.22966e-71
NC_012438.1\|WP_012674258.1\|794542_796246_-\|TIGR02556-family-CRISPR-associated-protein	gnl\|CDD\|274199	TIGR02556, hypothetical_protein_MM_0564, CRISPR-associated protein, TM1802 family. This minor cas protein is found in CRISPR/cas regions of at least five prokaryotic genomes: Methanosarcina mazei, Sulfurihydrogenibium azorense, Thermotoga maritima, Carboxydothermus hydrogenoformans, and Dictyoglomus thermophilum, the first of which is archaeal while the rest are bacterial.	0
NC_012438.1\|WP_041676032.1\|799286_799634_-\|type-II-toxin-antitoxin-system-PemK/MazF-family-toxin	gnl\|CDD\|367091	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system. PemK is a growth inhibitor in E. coli known to bind to the promoter region of the Pem operon, auto-regulating synthesis. This family represents the toxin molecule of a typical bacterial toxin-antitoxin system pairing. The family includes a number of different toxins, such as MazF, Kid, PemK, ChpA, ChpB and ChpAK.	2.19265e-17
NC_012438.1\|WP_012674815.1\|780597_781695_-\|hypothetical-protein	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	1.41108e-31
NC_012438.1\|WP_012675090.1\|785357_786440_-\|CRISPR-associated-protein	gnl\|CDD\|187792	cd09661, Cmr6_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr6. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	0.000482922
NC_012438.1\|WP_012673588.1\|790620_792909_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	3.90046e-47
NC_012438.1\|WP_187145717.1\|796402_798178_+\|elongation-factor-4	gnl\|CDD\|235462	PRK05433, PRK05433, GTP-binding protein LepA; Provisional.	0
NC_012438.1\|WP_049751976.1\|800033_800330_-\|PIN-domain-containing-protein	gnl\|CDD\|350244	cd18677, PIN_MjVapC2-VapC6_like, VapC-like PIN domain of Methanocaldococcus jannaschii VapC2, and VapC6, and related proteins. This subfamily includes Methanocaldococcus jannaschii VapC2 and VapC6. It belongs to the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	1.19764e-14
NC_012438.1\|WP_012674005.1\|781698_785370_-\|CRISPR-associated-protein-Csx11	gnl\|CDD\|274257	TIGR02682, hypothetical_protein_MM_3356, CRISPR-associated protein, Csx11 family. Members of this uncommon, sporadically distributed protein family are large (>900 amino acids) and strictly associated, so far, with CRISPR-associated (Cas) gene clusters. Nearby Cas genes always include members of the RAMP superfamily and the six-gene CRISPR-associated RAMP module. Species in which it is found, so far, include three archaea (Methanosarcina mazei, M. barkeri and Methanobacterium thermoautotrophicum) and two bacteria (Thermodesulfovibrio yellowstonii DSM 11347 and Sulfurihydrogenibium azorense).	0
NC_012438.1\|WP_012674618.1\|788987_789254_-\|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.	1.00804e-29
NC_012438.1\|WP_012674044.1\|792917_793607_-\|type-I-B-CRISPR-associated-protein-Cas5	gnl\|CDD\|131641	TIGR02592, hypothetical_protein_CTC_01466, CRISPR-associated protein Cas5, subtype I-B/HMARI. This is a CRISPR-associated protein unique to the hmari subtype of cas genes and CRISPR repeat, which is the only subtype present in Haloarcula marismortui ATCC 43049. The hmari type, though uncommon, is also found in the Aquificae, Thermotogae, Firmicutes, and Dictyoglomi.	4.26131e-36
NC_012438.1\|WP_012674782.1\|776259_778587_-\|PBP1A-family-penicillin-binding-protein	gnl\|CDD\|227342	COG5009, MrcA, Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane].	0
NC_012438.1\|WP_012674792.1\|793608_794556_-\|type-I-B-CRISPR-associated-protein-Cas7/Csh2	gnl\|CDD\|274217	TIGR02590, hypothetical_protein_MM_0563, CRISPR-associated protein Cas7/Csh2, subtype I-B/HMARI. This model represents one of two closely related CRISPR-associated proteins that belong to the larger family of TIGR01595. Members are the Csh2 protein of the Hmari subtype of CRISPR/cas system. CRISPR stands for Clustered Regularly Interspaced Short Palindromic Repeats. The related model is TIGR02589, the Csd3 protein of the Dvulg CRISPR subtype.	5.97759e-79
NC_012438.1\|WP_012673859.1\|787449_788196_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|224499	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	3.89834e-46

>NC_012438.1|WP_012673859.1|787449_788196_-|CRISPR-associated-endoribonuclease-Cas6
MRIKIKLTTDKDYVILPIHHNHIIQSMLYNSLPKEVAKFLHDVGFFYHKRQFKLFTFSKIQSQHYNIAKEKSQTKHIEYKIPISLYISSAIGDFTKSWGETFLKNEEVILGKNTLYLESIEVLPNPDLKEEFKIKTLSPITVYKTFENGKKYYRYYSPSEQEFKQLLKENLRKKYQLITNKEINDFPFDIEPITTKKVLIKYKNFPIEAYEGVFKIKTNPELFKVVFDAGLGAKNSQGFGMIEVLKNG
>NC_012438.1|WP_012675090.1|785357_786440_-|CRISPR-associated-protein
MAKFEAILEINLVKVKVDSLAEYIAYCKYNNRLEKNKGLKILKNIIKDNRPKIDISKIQEISGIYSESQLNNLQDYVKKLPKYSFAIWFTFKLEAPYFSKDDDDFYIIQNPILKETNFKAPMVRGSGWKGALASAFRELFKEDFENNKEKIESFLRIFGAGSESIKAIESYVFDKSKDLNKAKEKLLNFILFDLGLKVDRTLINEIKAKNNKEGLIEILKDKLSAKINDSKLPFEFQTHKGRAIFYPTYFDKLSIEIINPHDRIKRAGTVPIHFEVAPKGTYGIFQLIYIPFDAILKEETELKEESEKDLDNLCKAIEILSKQGIGAKTKYGWGRFTIENKKVCLNGDLNTPQGWERCQA
>NC_012438.1|WP_012674005.1|781698_785370_-|CRISPR-associated-protein-Csx11
MSGLNRIKNNKDEILKAEIVSYLALWEKLNPSKQNRASINIQCNNLSCWESALKNSKIDIRLEVNSKSFELWDNFLKDWRGWRKKNDLDFLLQILYGISESLNSGIDKGSPKEDVKVKPEEKRWLANAFGSYKEDIIYLRESENIINGRIQNINNKVQSLLGNSHIFFENLEELRKELKELLSGLLSDDRFPINDVSLWDQAYMTTSMFKALLSDYILINQDFTNIPDRQEVRWRILGIQYNKLGLAEKGFKLASIEWYRQQTKEIDDSIKKLLEVEYPIGNEVYRDDTGIYFIVGENLGKNKDNNLAVLVDDLKPLEEEIINIFNEKLEGEVCPVIILTKASRGLMNLGDLLEKAKENFLYVKTDNKITQTLMQNVNNTSTAIGICPLCKVRLIYEYDKQKNNSPTICKTCDERIHHYQVKKWLEEISKETIWTSEIKDKNDRIALISLRLELKDWLNGNMLNSLLGNMGLGDFTVEKGKIIKLILKGIVDTEIQEIINKIEKEICIEKFKNLYTVISLKDSNGNFICRENLNTLQNEIRNTSNRAEYGALISVVGFIRDRIYGNQSSNQDGYILKILENLDEFLKKLKISQDLFQFVKQLQDSGFYSLYKTIVEKLNELKAKLDSKYNSTNSSNFDKLIQYLRTEKSSSSLTEKEIKEFKQEIENILTQCKPIQNFDIDTLIKNSLYPFSINEELLNFYSKYNSVKEYFNEIFFGSIIGTQWENWIKQTPLNAKINWQDEKIEWDKFTDENDPALDILSTLLLQFLLRKNPSPARLRRIWETTQNFFEEIKREILDENLLGIPNWRRKRIVFELPYIQGIKDTGEELEGDGLLFWALPSENKDKTYIYLISSIEDFIRKYANKDTLKRLNENNLEDIDENNFEDFKIELKKYSEKENRETGSNLCSLQKSNIKNFVLYNSYASITDPTPVGWQVIIPTEYVPKFIDLIMEKYNKEFKYVYGKLPIHIGIIIQDYKKPLYIGLNALRKIRRDVKNIDKLYQNGTKFCMKYHQKILNYAKPEELCNSTQKYYSLYWDNKQKTNVDFYDFYIKPNENWKKTLSVMGNFVDDRYIEIIPNTFDFEFLDTNTRRNDIFYLKEKNYKRAFQLKSNRPYEIEEYWDRFKRFRDTFKDKTNTAKLHKLVNIFYDKIENYNKDINPLLASSIVNILELNKNKDLQRDIAFIFGLDEKNDIYKELVNKLNSENIKLFLDMFEFWSKALQEV
>NC_012438.1|WP_012674815.1|780597_781695_-|hypothetical-protein
MVETLKIFALATDPIYIGTGGYTIGRVDNTIVRDPITNIPKIPGSSLAGTWRYYVVLEALTLKDLKDKQTSTDENKSQNGSTSDEKLENCNGKNNPTNDWKAFLGNQVLRVNCAGQDDAPFVERNDKNNTGHCGCCIVCKGFGFSKKDISWQGMIFFSDLKILLFPVFTFKGTKWITTASILQEIGINESSPRENKIKTKNGNERYLNLGWLYLEVESNHNISNSPVSNFSLKPEDIVIVPESLFSHIVNSNLEVRTSVSIDPITGSAKEGALFTTEAIPRGTIFYGNIRIFDKNNFINSNNKMNNKIGSLPSCEQLKDALKDSARYYESLGIGGMTTRGFGRLKIELINGNSQSGGSQNGQSNQ
>NC_012438.1|WP_012674716.1|780197_780617_-|hypothetical-protein
MGNQINNLNIESLIVKVSYELVSEKILDKNQINKLLGVLASNGVYAMWVYALDKFRDNEEKQKNLFEFLKKIAELDRFITQSLSELINGIENKELERLDKITKYFIDISNDLHNLLFLKQILEKTLIYAYYHARAQGED
>NC_012438.1|WP_012674030.1|779365_780196_-|hypothetical-protein
MPWYKLVFRQNQPIHIGSTKWGVVKETDLFISGQTMWGALTNAYYQKNSQYDENDENKFKTISNFFPSFDGKNILKPSYKDGEFHLGDFSEEEFRAYFVDTYVQTAVEPINRKAKDKSLHEIDYILPRPKREFQNIEKLSNLQNNLHWIGIVFIDEDINFLKEKPKIYVGSDVRYGFGELELVELGKDIDEKFWWIEGDKINIEQKEHSPYFIELNINSKIEFEGEVLPIVEMDFQKNTPKVNKYGFYINVGSKINSLDGAPIQGKLEKGKIIFSQ
>NC_012438.1|WP_012675035.1|779019_779283_-|hypothetical-protein
MLKRVYFALVLAVIFSFHLHAKEIPAPFGIQLGKDNVQTVKSIIQKEGGRITEEGYRLVNNENIQNPDVYGIFVKNLPIDYLKVAKF
>NC_012438.1|WP_012673793.1|778713_778971_-|hypothetical-protein
MDKKEFYEIYNQLKSKYGTPVRYVKPYLADGIAVWKIDNYEISLSAPWVSWNMYLTYKYLPLSKLAEQSDKEVYQRETTKPKKGF
>NC_012438.1|WP_012674782.1|776259_778587_-|PBP1A-family-penicillin-binding-protein
MNRVVLIGLSIFSLLFLVFGIYVFVITRDLPDVRQLENWKPPEASVILDYQDKVYNELFIQKRYYVSIDKIPDHVKKAFIATEDKTFYSNPGIDIFAIIRAGIKNIIKMGKAEGGSTISQQLAKNLFLTPEKSLSRKIKEAVLAVRLNKIYSKDKILEMYLNQIYLGQGSYGVEAAARTYFGKSISQVDLCEAAVLAGLPKAPSKYNPYVNPDLAEKRKQVVLQRMLEEGYITEADYKSCVEKPIKLAGIIRSDNFNDYFTEIIRQWVIDNYGEDAISQGGLKIYTTIDTALQMYAQKRVQQWLEDLQNRVGFPKLSKDDIEYLKVRYENQKVSPDTIIKNYIYVAQIKSISKGKISFSIDQVEGEALVKNTANLKVGDYVYVRYQENGTFKVLPFLEAAVVSIDSKTGGIRVLIGGYEFRKSQFNRVFQSKRQPGSAIKPIIYMAALLNGYTQISTLEDKPISFWDYSQNKEWTPKNYDGNYYGTVTLRKALAKSLNAATVYLLSQIDFDPVLSVAYKVGIKQKLPKYYSLALGSVEITPIELANTFATFGNYGTKCEPYFIRKVVDKEGNILYRQGPKCEEVLPKPESAVMVDLLRAVVLEGTAVKASSMSVPVAGKTGTTNDYSDAWFAGFDPDLTTVVWVGYDKRKPIGKGMAGAEAALPLWIDIMNYANRSGVYKEFPKVEGTVYIPIDPITNKVANENCPGRYILFVEGTYPTVDCDGNQVDFSQLFKKPEENPQPQGESPPTEETNPQPQENQPTKESQEILDILKNR
>NC_012438.1|WP_012674024.1|775917_776172_-|hypothetical-protein
MEKEKELELKKLEIEKAKVYEGILRTLVFTILTLGAGIGTVLYRLYSSKELDSLIISILSTFVIVFSITALWIYLRIHKILKEV
>NC_012438.1|WP_012674618.1|788987_789254_-|CRISPR-associated-endonuclease-Cas2
MFIILVYDANEKRVSKFHKICKKYLTHVQNSVFEGEITEANYRMLIDELRTIINNDEDSVLVYKFRTKKYYEREEFGIKKPSSEDIFF
>NC_012438.1|WP_012673588.1|790620_792909_-|CRISPR-associated-helicase/endonuclease-Cas3
MFSGLLSHPDRYIEEHLSNVLEIGLKFFQDIYQDKVLKDVFSIILFSHDLGKTTDYFQRYIQGEKVDKKLKNHSLLGAVVSLYLTDRYLKTEQIDDNFLLVISFVVPKRHHSDLQDFMDDLVLDDDDIDLLKQQIETIDKEKFKVFLENLKIENKDIFDFDFDEIDLEKIKNLVSDLKRFVRKEIRKTDKLDYYVKALLFYSLLLDADKSDVGIKTDKDVLFKKFDLKPDLVANYVENLPKQDNILYNLRQQAYTEIKNQEVDLKHKIYTLNLPTGIGKTLLSFKYALKIADKFKQETGKDLRIIYVLPFLSVIEQNHKVIENLLKHSNINVDNSLLLKYHHLTGFNYKDEEEILDYDTSRILTEGFNSKIIITTFMQFFYSIIGNKKGMVRKFHRLTNSVVILDEVQSIPTKYWLLIREVLYFLAERFNLYVIYTTATLPDIFINGKNLSSGEYFNKLNRYQINIDLSQKTVSEFCSNLQLQHDKSYLFILNTVSSAKEVYNFLKQKYPDQVIYLSTHIIPKERLKRIQALKDKLKPIAVSTQLVEAGVDIDFDVVYRDFSPLDSIIQSAGRCNREGLREKGLVYVINLIDDKNRKYSSYVYDTVLLEATKDVLTKDLYDEIEIQELVKRYYRLLNERKYQDRDILKSATGLVFSGENSIEDFLLIEEGKYKQDVFIQLDDRAVEVWNEFKKVLTIENLFERKKAFNSIKKDFYEYVVSVPIKNNEPNKDGNFYVVHKSELEGFYDEETGYKVKGDIFLEY
>NC_012438.1|WP_012674044.1|792917_793607_-|type-I-B-CRISPR-associated-protein-Cas5
MEVLVFDVWGDFGHFRKFYTTTSPLTFSIPPPTAVFGIIGAILGIDKKDYLKIINAETTKVAIEIVKPVKKIRFTINYIDTKVSFSRIKNRTPIRTEFLKDAHYRLYINLNEENLFRELKDRIKERKTYYTVSLGLANLIANFKYIGQYQVEPLDASNYVNTVISSENIENIEMVEGKRYFKEKMPVDIDENRVVKSYKDIVMELQGKPIEGSFKNVFKVEDKVISFLT
>NC_012438.1|WP_012674792.1|793608_794556_-|type-I-B-CRISPR-associated-protein-Cas7/Csh2
MLNRREYLFLYDVSFGNPNGDPNDENKPRIDEETGRNIITDVRLKRTVRDYLYDFKGMEIFVREIKEGEYVIDGKKRASMFGNNPENIINSCIDIRLFGGVIPLEKKNNNKKGKKEETKEEETTEDTKSGSIKFTGPVQFNMGQSLHKVKLEYIKGTGAFASKKEKTTKTFREEWILPYSLIAFHGVFNENASKHTKTTEKDLEHLREVLWYGTKNLITRSKMEHIPRLLIEIVYKPNTYFHIGELHRYVKIETNIPEEHIRSTDDFILNIDRLIEVIEEEKDKIEKVNYKVDRNLRLSRDLKSDLVEFQEIKGI
>NC_012438.1|WP_012674258.1|794542_796246_-|TIGR02556-family-CRISPR-associated-protein
MIEAVRNLGEFVLQQENKSEIDILLENPNSGNYNKVIVLNFNKDFTFSNITTEDFKKDNWRVYLYRRKSSNGPDFTPTARVTEPKKTIENKIIKWFEEHRNENQILKKMYEELIKNKNDILNEVEKRKSSKDEGIVLTVKIDGKYLYEIDNPNFKEIFIKDFYKRLKDTKSKNACCSLCGEVKDEVFTTSEIYKFYTLDKPGYIAGGFNKSNAWKNFPVCESCYLKVDYGRKYIEEHLEFNFYGKTYYIIPNVILNTKEVMNEYLDILSEAKKRVSLKDKNPTEDENYIINLLKDHKDGLCFYFLFLKKENSAERILLLIEDVLPSRISKIFKVKKEVEKIFNIENYNFGFLTQFLGNYDKIFFEVIDKIFRGGKLDFQTLLQIFTKKIRDEFLSGNSITNTVIYALMNVRFFEELGLLESKEGKMEKTKFDEIYEKVGKSLNTPAKRGIFLLGALTQMLLDIQWSERKTTPFFKNLKGLKMNEEDIKGLLPKVVNKLMEYERYDKGKQELAQEISKNLLSQEKFGLSINEINFYFVSGMALSEEVANIIKKEKNFEIKEESSDVEP
>NC_012438.1|WP_187145717.1|796402_798178_+|elongation-factor-4
MEKIRNFSIIAHVDHGKSTLADRLIEFTGGVDKREMKDQLLDTLDIERERGITIKLQAVRLKYKDYTLHLIDTPGHVDFGYEVSRSLAACEGALLLIDATQGIEAQTIATFWQALNLNLEIIPVINKIDLPSADVDRIKKQIEEVLGLDPEGAILASGKAGIGIEDILEAIVKRIPPPKGDENKPLKALIFDSYYDPYRGAVAFIRVIDGQIKPGMRIRLMSTGKEFEVTEVGAQTPKMTKLDSLQAGDVGYVAAAIKDVRDIRVGDTITDAKRPTDAPVEGFRPAKPMVYAGLYPTGSTTFEDMRDALERYSINDAALTYEVESSPALGMGFRCGFLGLLHLEIVQERLEREYNIELITTAPNVIYKVITTKGEEIEVRNPSQLPPPTYIDKILEPYIEASIITPSEYVGSIMQLVQEKRGIQKSFEYIDQKTVLLRYEIPLGEVLFDFHDKLKTATKGYASFDYEFIGYREGDLVKMDILINDEPVDALSFIVHRDKAYRVGRNLVDKMKEVIPRQLFEVKIQAAIGSKVIASARIAPLRRDVLAKCYGGDITRKKKLLEKQKEGKKRMKQFGKVELPQEAFLSILKAD
>NC_012438.1|WP_012673562.1|798177_799131_+|biotin--[acetyl-CoA-carboxylase]-ligase
MIDEVKLINLLKSKKMSGEEIAKQFGTSRVAVWKKINKLKSLGYEILTDKDGYQIIKSPDKPLPAEILPDLNTKFLGKNYIYFEEVNSTNLYAKSKDFPDGTVIFAEYQTQGKGRKGRSWISSKYKGLYFSIVLKPDIEVVNLSKFSLLFPYSVFKTLKSFTTTDLKIKWPNDLYLNSKKLAGFLMESSIENNIITKLIVGIGINVNQDIQDFPDDINQVATSLKLEEGKEFSRKEIFLKILSNIEKDYLNFLKDKYLDIKNIEKNLLWLGENVSIYEDGEVIASGILKGLNGDGSLILSHNGTEEIIYVGDLSLRG
>NC_012438.1|WP_041676032.1|799286_799634_-|type-II-toxin-antitoxin-system-PemK/MazF-family-toxin
MKRGEIWLINFGKKYHSEFGKIRPALVIQTNLINNILDKIVFKGVTVIPLTTNLTGGDLRVLIKRRDRLEKDSEICINELCTVDISRFIGEKPLTILSQNEIEEVNQKLKFHLAL
>NC_012438.1|WP_012674368.1|799645_799897_-|hypothetical-protein
MKTLTIKEAVKKPSNISNPKEITYILDSKEKKIKSVVIPYEMYLKVKEELEAEEFLKRNYKTLMSEKNYKIFKETTDNIAEDL
>NC_012438.1|WP_049751976.1|800033_800330_-|PIN-domain-containing-protein
MKKFMVDSNIIVIPLMNSVLNSFFKIPTQTENTYKVLFNVCEKYGLLPKDALILASCIEHKIDNLITFDKDFSKLNLKENINIISTAEVFQKTINDSV

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Crispr_ID: NC_012438_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_6

968827-969464

Orphan

Consensus_repeat	Method
GTTTTTCTCCCGACTATGAGGGAATTGAAA	PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CRT

9 spacers

The CRISPR arrays of NC_012438_6

>merge|NC_012438|6|968827-969464|PILER-CR,CRISPRCasFinder,CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAACCTACATCACTTTTTTAGATTTGTCAAATCTAAAGTGAGTTTTTCTCCCGACTATGAGGGAATTGAAACCCATAACACACCTCCTATTTAAATTTTTTTTGGGACGTTTTTCTCCCGACTATGAGGGAATTGAAACTACTCTAAATAAAGTTTTTCAAGTCCAGAATCAAAAGTTTTTCTCCCGACTATGAGGGAATTGAAACTATTTTTCCCATTTAGCTTTCCTATATACACTCCCGTTTTTCTCCCGACTATGAGGGAATTGAAACAGGGTTGTAAACGATGAAGTGGGGGAATTGTCCCCCAGTTTTTCTCCCGACTATGAGGGAATTGAAATTTGACAGCATCACGCAAAAAGATGAAAGAAAGACCCGGTTTTTCTCCCGACTATGAGGGAATTGAAACTCAGATGCACTATCAGAAGAAAGAGATTTGTCTTCGTTTTTCTCCCGACTATGAGGGAATTGAAACATTGCTTTTCTGATTGCAATAAGTCCAACCAAAGCACTGTTTTTCTCCCGACTATGAGGGAATTGAAGTGATTTAAAATCTGTTGTGTGAATAAATCCTTTATTTGGTTTTTCTCCCGATTATGAGGGAATTTTCAT

>NC_012438|6|7|968827-969395|PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CCTACATCACTTTTTTAGATTTGTCAAATCTAAAGTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CCCATAACACACCTCCTATTTAAATTTTTTTTGGGAC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTACTCTAAATAAAGTTTTTCAAGTCCAGAATCAAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTATTTTTCCCATTTAGCTTTCCTATATACACTCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CAGGGTTGTAAACGATGAAGTGGGGGAATTGTCCCCCA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	TTTGACAGCATCACGCAAAAAGATGAAAGAAAGACCCG
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTCAGATGCACTATCAGAAGAAAGAGATTTGTCTTC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CATTGCTTTTCTGATTGCAATAAGTCCAACCAAAGCACT
GTTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|6|6|968827-969464|CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTACATCACTTTTTTAGATTTGTCAAATCTAAAGTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CCATAACACACCTCCTATTTAAATTTTTTTTGGGAC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TACTCTAAATAAAGTTTTTCAAGTCCAGAATCAAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TATTTTTCCCATTTAGCTTTCCTATATACACTCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	AGGGTTGTAAACGATGAAGTGGGGGAATTGTCCCCCA
GTTTTTCTCCCGACTATGAGGGAATTGAAAT	TTGACAGCATCACGCAAAAAGATGAAAGAAAGACCCG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCAGATGCACTATCAGAAGAAAGAGATTTGTCTTC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ATTGCTTTTCTGATTGCAATAAGTCCAACCAAAGCACT
GTTTTTCTCCCGACTATGAGGGAATTGAAGT	GATTTAAAATCTGTTGTGTGAATAAATCCTTTATTTG
GTTTTTCTCCCGATTATGAGGGAATTTTCAT

>NC_012438|6|6|968827-969463|CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CCTACATCACTTTTTTAGATTTGTCAAATCTAAAGTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CCCATAACACACCTCCTATTTAAATTTTTTTTGGGAC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTACTCTAAATAAAGTTTTTCAAGTCCAGAATCAAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTATTTTTCCCATTTAGCTTTCCTATATACACTCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CAGGGTTGTAAACGATGAAGTGGGGGAATTGTCCCCCA
GTTTTTCTCCCGACTATGAGGGAATTGAAA	TTTGACAGCATCACGCAAAAAGATGAAAGAAAGACCCG
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CTCAGATGCACTATCAGAAGAAAGAGATTTGTCTTC
GTTTTTCTCCCGACTATGAGGGAATTGAAA	CATTGCTTTTCTGATTGCAATAAGTCCAACCAAAGCACT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TGATTTAAAATCTGTTGTGTGAATAAATCCTTTATTTG
GTTTTTCTCCCGATTATGAGGGAATTTTCA

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012673757.1\|974733_975195_+\|crossover-junction-endodeoxyribonuclease-RuvC	unknown	unknown	gnl\|CDD\|340813
NC_012438.1\|WP_012674510.1\|970650_971466_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673583.1\|971465_972926_+\|SAVED-domain-containing-protein	unknown	unknown	gnl\|CDD\|380122
NC_012438.1\|WP_012674416.1\|976109_976322_+\|MoaD/ThiS-family-protein	unknown	unknown	gnl\|CDD\|340763
NC_012438.1\|WP_012675077.1\|969976_970645_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674634.1\|964268_965117_-\|peptide-chain-release-factor-N(5)-glutamine-methyltransferase	unknown	unknown	gnl\|CDD\|236467
NC_012438.1\|WP_012673457.1\|975484_976120_+\|RdgB/HAM1-family-non-canonical-purine-NTP-pyrophosphatase	unknown	unknown	gnl\|CDD\|237824
NC_012438.1\|WP_012673471.1\|966409_967384_-\|Holliday-junction-branch-migration-DNA-helicase-RuvB	unknown	unknown	gnl\|CDD\|234619
NC_012438.1\|WP_012674579.1\|965724_966423_-\|DNA/RNA-nuclease-SfsA	unknown	unknown	gnl\|CDD\|224406
NC_012438.1\|WP_012675104.1\|962958_964251_-\|UDP-N-acetylglucosamine-1-carboxyvinyltransferase	unknown	unknown	gnl\|CDD\|236486
NC_012438.1\|WP_012674927.1\|975191_975488_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674194.1\|972952_973879_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674399.1\|960166_960973_-\|SPOR-domain-containing-protein	unknown	unknown	gnl\|CDD\|335993
NC_012438.1\|WP_012673450.1\|967705_968689_+\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_012438.1\|WP_083758907.1\|965113_965704_-\|trimeric-intracellular-cation-channel-family-protein	unknown	unknown	gnl\|CDD\|225415
NC_012438.1\|WP_012673913.1\|960972_962631_-\|arginine--tRNA-ligase	unknown	unknown	gnl\|CDD\|234964
NC_012438.1\|WP_012674571.1\|957784_959464_-\|DNA-primase	unknown	unknown	gnl\|CDD\|235551
NC_012438.1\|WP_012674958.1\|973975_974731_+\|YebC/PmpR-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|234640
NC_012438.1\|WP_012674300.1\|969530_969980_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674080.1\|959519_960170_-\|DUF445-family-protein	unknown	unknown	gnl\|CDD\|226834

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673757.1\|974733_975195_+\|crossover-junction-endodeoxyribonuclease-RuvC	gnl\|CDD\|340813	cd16962, RuvC, Crossover junction endodeoxyribonuclease RuvC. Crossover junction endodeoxyribonuclease RuvC is also called Holliday junction resolvase RuvC. It is part of the RuvABC pathway in Escherichia coli and other Gram-negative bacteria that is involved in processing Holliday junctions, which are formed by the reciprocal exchange of strands between two DNA duplexes. Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. RuvC is thought to bind either on the open, DNA exposed face of a single RuvA tetramer, or to replace one of the two tetramers. Binding is proposed to be mediated by an unstructured loop on RuvC, which becomes structured on binding RuvA. RuvC can be bound to the complex in either orientation, therefore resolving Holliday junctions in either a horizontal or vertical manner. HJRs occur in archaea, bacteria, and in the mitochondria of certain fungi. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the Escherichia coli HJR. RuvC and its orthologs are homodimers and display structural similarity to RNase H and Hsp70.	4.05531e-47
NC_012438.1\|WP_012673583.1\|971465_972926_+\|SAVED-domain-containing-protein	gnl\|CDD\|380122	pfam18145, SAVED, SMODS-associated and fused to various effectors sensor domain. Predicted to function as a sensor domain, sensing nucleotides or nucleotide derivatives generated by SMODS and other nucleotide synthetase domains. The sensing of ligands by SAVED is predicted to activate effectors deployed by a class of conflict systems which are reliant on the on the production and sensing of the nucleotide second messengers.	1.79922e-14
NC_012438.1\|WP_012674416.1\|976109_976322_+\|MoaD/ThiS-family-protein	gnl\|CDD\|340763	cd17506, Ubl_SAMP2_like, ubiquitin-like (Ubl) domain found in small archaeal modifier protein (SAMP2). Ubiquitin-like small archaeal modifier protein 2 (SAMP2) shows a beta-grasp fold of Ub, suggesting that this archaeal Ubl molecule is more closely related to eukaryotic Ub and Ubls than to its prokaryotic counterpart. Several Ub-like structural features such as an N-terminal single lysine residue and di-glycine motif at the C-terminus, spatially isolated, implicate formation of a poly-SAMPylated chainpoly-SAMPylation. SAMP2 can form covalent conjugates with its protein targets through an isopeptide linkage via their C-terminal diglycine motif in a streamlined archaeal E1-dependent pathway. It also forms homo-conjugates through the intermolecular isopeptide bond between the C-terminal Gly and the Lys58 side chain, a feature that likely resembles polyubiquitination. SAMP2 is involved in sulfur transfer during tRNA thiolation much like Urm1. This family also includes uncharacterized proteins such as Methanothermococcus thermolithotrophicus Mth1743, Pyrococcus furiosus PF1061 and others, all closely related to proteins MoaD.	1.03386e-07
NC_012438.1\|WP_012674634.1\|964268_965117_-\|peptide-chain-release-factor-N(5)-glutamine-methyltransferase	gnl\|CDD\|236467	PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional.	2.8509e-96
NC_012438.1\|WP_012673457.1\|975484_976120_+\|RdgB/HAM1-family-non-canonical-purine-NTP-pyrophosphatase	gnl\|CDD\|237824	PRK14824, PRK14824, putative deoxyribonucleotide triphosphate pyrophosphatase; Provisional.	9.66306e-117
NC_012438.1\|WP_012673471.1\|966409_967384_-\|Holliday-junction-branch-migration-DNA-helicase-RuvB	gnl\|CDD\|234619	PRK00080, ruvB, Holliday junction branch migration DNA helicase RuvB.	0
NC_012438.1\|WP_012674579.1\|965724_966423_-\|DNA/RNA-nuclease-SfsA	gnl\|CDD\|224406	COG1489, SfsA, DNA-binding protein, stimulates sugar fermentation [General function prediction only].	4.95814e-73
NC_012438.1\|WP_012675104.1\|962958_964251_-\|UDP-N-acetylglucosamine-1-carboxyvinyltransferase	gnl\|CDD\|236486	PRK09369, PRK09369, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated.	0
NC_012438.1\|WP_012674399.1\|960166_960973_-\|SPOR-domain-containing-protein	gnl\|CDD\|335993	pfam05036, SPOR, Sporulation related domain. This 70 residue domain is composed of two 35 residue repeats found in proteins involved in sporulation and cell division such as FtsN, DedD, and CwlM. This domain is involved in binding peptidoglycan. Two tandem repeats fold into a pseudo-2-fold symmetric single-domain structure containing numerous contacts between the repeats. FtsN is an essential cell division protein with a simple bitopic topology, a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. These repeats lay at the periplasmic C-terminus. FtsN localizes to the septum ring complex.	3.60008e-08
NC_012438.1\|WP_012673450.1\|967705_968689_+\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.28773e-21
NC_012438.1\|WP_083758907.1\|965113_965704_-\|trimeric-intracellular-cation-channel-family-protein	gnl\|CDD\|225415	COG2860, COG2860, Predicted membrane protein [Function unknown].	8.32973e-48
NC_012438.1\|WP_012673913.1\|960972_962631_-\|arginine--tRNA-ligase	gnl\|CDD\|234964	PRK01611, argS, arginyl-tRNA synthetase; Reviewed.	0
NC_012438.1\|WP_012674571.1\|957784_959464_-\|DNA-primase	gnl\|CDD\|235551	PRK05667, dnaG, DNA primase; Validated.	1.82128e-160
NC_012438.1\|WP_012674958.1\|973975_974731_+\|YebC/PmpR-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|234640	PRK00110, PRK00110, YebC/PmpR family DNA-binding transcriptional regulator.	1.30147e-157
NC_012438.1\|WP_012674080.1\|959519_960170_-\|DUF445-family-protein	gnl\|CDD\|226834	COG4399, COG4399, Uncharacterized protein conserved in bacteria [Function unknown].	7.67206e-32

>NC_012438.1|WP_012673450.1|967705_968689_+|IS481-family-transposase
MKGIIGTPMYMTTLFPKKLSNKIKDIPLTKEAKKRLKWIQHYQDTKNISKTCRYFGISRTTFYKWFERYKKDGLEGLLDRPKTPKNTRKPTIRNQYREQIIKVRKQNPTWSKEKISAYLQEEKNIKVSPSTVYKVLKEEGLIERTKSIKIQNKRKKSIKKKRTKRGLQAQAPGDVVQIDVKHLNIAGATYYQFTAIDKYSRFCFARVYESKNSKKTKEFYIELNEYFEFEIKRVQTDNGSEFLGEFNKYLTDIGVEHYFSYPRSPKTNGVVERLIRTIEEELWLIEGLDYTLEEMNKKLRKYVRKYNFIRPHHSLGYKRPADIVYGV
>NC_012438.1|WP_012673471.1|966409_967384_-|Holliday-junction-branch-migration-DNA-helicase-RuvB
MEKIELSVRPKFLDDFIGQDEVKRQLKVFIEAAKLKNKPLDHVILSGPPGLGKTTLASVIANEMGSNIKITSAPVLEKKGDLIGLLTSLKDNDILFIDEIHRLSPSLEEILYSAMEDFKVDVILGGGSGRKGRSAKAIRLDLAKFTLIGATTRVGMLSSPLMSRFGIVLNLDFYDEDSLSKIILRTATINNIPITQEGALEIAKHSKGTPRIANKLLSRVYDYAVIHGNKVIDKEVANQALRFLSIQELGIDSLSLKYLKTLVIQFNGGPVGLNTISFAISEDKRTIEEVIEPYLLKIGFIKRTAKGRVALKPAFEFLNLDDNT
>NC_012438.1|WP_012674579.1|965724_966423_-|DNA/RNA-nuclease-SfsA
MIILNSSEIGKPVSGTFLYRKNRFVGVCLLDGKEVSFHISDTGRLKEILTQGREILLLKSKQHNKLPYKLLAAKMEEGFVLINTSLHSKIGKKIIQMGLLGFKPSKIKSEIVYKDSRLDFLVDDKLYIELKGCNLLVDNRCLFPDAPTTRGLKHLKHLIEIKKEGFEAAIMILSLRECDTFLPNYNTDPNFSKIFETALKEGVKFYGFKVKFDNNFNIVYNGELEVDKQLWK
>NC_012438.1|WP_083758907.1|965113_965704_-|trimeric-intracellular-cation-channel-family-protein
MNIIGIVAFAMTGSLKAIKEGLDLLGITVLGVMTALGGGITRDLLINTVPNALKSLTDMSVALLGVWLAIIIYKVAKGDIGNKYYILIPDAIGLSAFTTTGALIAYNADVSFFGIVILATLTGVGGGIISDLLLGKVPSVLRDDFYASCSIIGSIGFYITITLTQDLTVSAIVCSLMVLMIRIVAILYNWRLPKFQ
>NC_012438.1|WP_012674634.1|964268_965117_-|peptide-chain-release-factor-N(5)-glutamine-methyltransferase
MKLKTLFEMVVNILKKADIENPQLEALIILQEILKIPKHKIFTDPDLEIKDYQEAINVALQRSKKVPLGYLIKKKEFFGLEFYIEEGVLIPRPETEVLVEKVLHQLENLKNPLGLEVGVGSGCISVSLLYNKKDLKMYALDISEKALKITKINAEKYDLLDRLTLIKFDVMKDDVKDLNLDRLDFVVSNPPYISEDEYESLPEEVKKEPKEALISGKVGTEFYEKIVEKFKNYLKEYGFFAFEIGINQAEKVKSILERNGFKNIKIYKDLAGIDRVLIASKI
>NC_012438.1|WP_012675104.1|962958_964251_-|UDP-N-acetylglucosamine-1-carboxyvinyltransferase
MIKEEIKLKEALIVEGGCRLEGVLEVSGAKNAALPNMAATILTDEEVIIENLPNLLDIQTMEKLLTNIGVAVNHIKDKTYSFKANNITSLTAPYDLVSKMRASILILGPMLTRFGYAEVALPGGCSIGTRPVDLHLKALEKMGAEITLEHGYIKAYAPRGLKGAHIFFDKITVTGTENIMMAAVLAEGKTIIENAALEPEVVDLAVMLKKMGANIKGEGTHRIEIEGVKSLKGTYHTVIPDRIEAGTFAVLSALTDGKIIIKNYPSYYLEYVDEILEKIGVSVVKISDNEVVIKRKDTLKPVNIETKEYPLFPTDLQAQFMTLLCFADGVSEITENIFENRFMHVPELNRLGANIDIKGKTAIVKPVKKFSGAHVKATDLRASAAMVIAGLVAEGETTIHSIYHLDRGYEHIDEKLKSIGAKIRREVIEE
>NC_012438.1|WP_012673913.1|960972_962631_-|arginine--tRNA-ligase
MKKEVREKIVEILKKEELFYPEIEDKIKVEPPKEESFGDLATNVAFLLTKHLKQKPQDIAEKIKSLLEKDPTFSKVEVLNGFINLFLSDSYYHSVVKKAVEEGDSFGENKEKNRGKINIEYVSANPTGPLHLGHGRGAVVGNLLSNMYSYIGYKVEREFYINDAGNQIKKLGQSVYARFRQIEEPDFPFPEDGYHGEYIKDIAKEIYHYEREKILSMLSEEDAVEFCAEYAKNYLLDKIKEDLKLINVDFDIWTSEKSLYQHGKVDQALKFLEEKGMIYEKDGALWLKTSLYGDEKDRVIKKSDGSYTYFAADIAYHYDKYERGYDFIINVWGADHHGYFPRLKAAVMAFGVREDWINVVFIQLVKLFKNGEEVKMSKRSGDFITLRELVEEVGKDAVIYFFASKDPNTHLNFDIDVALAKSNENPVYYVQYAHARISSVFREAKERFNFDPEKDFEADLSLLTQEEEKSIMKFLSNLPQEIEEATLKKEPHKITSLTYELASKLHKYYYQHKFLIETDEKLMKARLYLLKAIRNALRTLFKLMGITPVERM
>NC_012438.1|WP_012674399.1|960166_960973_-|SPOR-domain-containing-protein
MEDRDLKSAVKQIKQKKKKEILERLIIFLSGLLITLVFIAIGLNFYSKSNQTVSEPQVKVATEAVKPTTPPSPQNLQTTPPVEQPSQPIEQQNKPSETVQTQPTQEKKQVETPPKKEQPPQLKQEPTEQIKAVQKVEKENKKENKENVKQEVKTSNKPTENVEKQPKKEEKQVATSKSESQVKQTPKKEESTAKEIIDKIKSGYFSIQVGAFSTREKAEVEKAKYTNAYIIEEGGLHKVLVGKFQTEKEARDYQKESGIKGFIKRLGS
>NC_012438.1|WP_012674080.1|959519_960170_-|DUF445-family-protein
MIEYLIPPLTGAFIGYITNWLAIKMLFKPYNEVRIFGIKMPFTPGLIPKRRDEIAKSIAKVIRQHLVNPENLHRLFMESSYKEVLENKLNTVVEEIVDKLLISLKEEVETKVKISFLSGYTDKILQSLSDKVKPIIIEKSQHSIKENLEKHIEEELPQLLASLDVEKVIYETLSSIDIRQLEEIVLGFSEKQLKHITYLGGVIGFFIGLLQIFINH
>NC_012438.1|WP_012674571.1|957784_959464_-|DNA-primase
MAISPDTVEEVNRVANVYDVISDYLNLKRQGSVYVALCPFHNEKTPSFVVSPTKNIFKCFGCGISGNAIKFVMEYEKISYFDAVVKLAQKYNIPIKYLDSEKEKLNKGLYLTTRIITEFYKENLKKSQVCKDYLKNRGILSRTIEEFELGYSPEDNSILQKYIQEKNVPLEDLEKIGLITKTDSLFKDKFSGRLIFPIKDVKGNIVAFGGRSLDNTRQPKYLNSPETVIYKKGNTLYGIYQSLEHLKEKQSVVIVEGYMDLISLYQIGIKNVVATLGTAFTKNQAKLLKKYVKEAVVMFDSDEAGKKAAIEAAKILLSEGITVRYAYYKEAKDPDELSKQGLSKVKQVIENSKDIIIFLLERLKSIQDSDIKTQLKSYQTIYDYITKILAYIEDPSLRNSYIEIVAKYTGRSFANVELDIEKVRILTKRERGSFNYNYTDDESTSIKPKLNMKEEIVLKYILENPDFLQKYDFYDIISVSENLGYYVQLINSGNTQVIQELSQILNQHNISATEETVLKILEDFRQEWIKKQKSLAISNLSERDFIDIFNEIKTLKRRR
>NC_012438.1|WP_012674300.1|969530_969980_+|hypothetical-protein
MGFNLGEILAVALPVQGEQIKKGQVYAVKTKAFYLKTNIKLYNQDDSERKSRPIIIIDKNQDVIKFIALSTTPSYNLKTGKYRKRISLENCKFEGDGFCANIKIKKEAYIFVRDNRDRFYINEKIFKDLKSNREAKLCGKCENFGGKTN
>NC_012438.1|WP_012675077.1|969976_970645_+|hypothetical-protein
MNSADKIYNFLINFDEEGLNHIKKMFYTQISKQSYQILYQDKDDLLNDFITYKLIPKRKEIAEKFSQSTDGLVSYISIAIENFLKTEITKKIYKSEMFQNSVYYNQEEDEKEDTFERVLETTQAKEYDVLVKIEAEDIYNKLIEELKDTEKQLLCYLISEEQLQSYIKENFFKDISEDAFYKRIERLKKKLSSIAQEYGYSQEGFEEAFNTFYTQICKNYKG
>NC_012438.1|WP_012674510.1|970650_971466_+|hypothetical-protein
MKKDIREIIYRLYEESLKEEPFEEFRGEEEPIIGGVYLGLLNKKRVMFVIIDKITDKYFEVLKISHFWELGTIRDIVYRNEIGTFIIETDLNFYLKDDEIKRFKKIDIIDNVEKIKEYRELSTEEKLKSNIERGLFYIYENVWVEKFKEKELEVIKPYHLRIFNIIDELEKEEYNIIPLSPEREENYRYTAVASTEKNTALGENFVIYREPQYINIIVSQEFINKKVSVFLEGEKIFENVLDDTVITLKFENPKNIDLEKLAKSIKVVVEE
>NC_012438.1|WP_012673583.1|971465_972926_+|SAVED-domain-containing-protein
MVKQFLEDLERFYPVILNLIKDGNIKKEWLADLYSIFNMEDSPYITPLKFHLYSLLVHHPEFLDYKLLSEKLNLSEDEIYEIFVKGKQAFEVYFPVYLPDEEEAHLYKALIVEGTSKTFTFNKFVDLQTIKAVANKDFFVIFSNYFTGDSYQFSIVAGLIAKDKNILKNLAFTGKVSSSGKILPVNHVNEKEKITKANEKNLITPDDISTLEELEFWLNSSQIPVILLNRNTDNNIKESLHQIETLIKQDCPYFTIKNLIKFYNLSEEDLYIITPSIDFSNREELLNILKQFEERLEKLFSVRNSILYISLSVASLGFLVGSLIGARKKVVILHYQGEYRKAIDMSKDPRVIKENVKEYSIIQPESCNTDQEIALILNIASHNPVNSAKSYIEKNLPHVKSTCVINTIYGGNIPLEEFLTISRELYTYINTIKDKIHLFYSIPVPISLSLGMAIAHFKDITLYHYDSKNTTYIKIPINLNEVRSKF
>NC_012438.1|WP_012674194.1|972952_973879_+|hypothetical-protein
MKIMSKYKEEILLIIVFFSFLLNLYFVDSNKLIYNFLVSLVIFIFSLYCWKVSNVSYNKSVLKNLSNIIKGDVATFLGFSAFVSEFILFNFLFEYTKNFIEENKMLDFCKAIISFIGILSIGLLFFSFYQEKIKAYINSKKSLKREPRKVLIFALSIPGKNLESLETLPRNWQPIKELLEFHKSRLEVAYVLISEETEKYKTEFEKFFTEFKSKIKYIEKVNMNDESSIVNALINVVRDIKNNKYEEQDISVYLSGGTSLVTTILSLFGVNDDIQVECILQTSGNENEKPEIKTIDLRKDLLSIFVSD
>NC_012438.1|WP_012674958.1|973975_974731_+|YebC/PmpR-family-DNA-binding-transcriptional-regulator
MAGHSKWHNIKNKKAKMDAIRGKIFTKVIKEITVAARLGGGDPEANPRLRMAIEKAKEVNMPSENIERAIKRGTGELEGVNYEEVRYEGYGPEGVAIIVEATTDNRNRTTAEVRHIFSKYGGNLGSSGCVSFLFEDKGVINVEKSKYSEEEILEKALEAGAEDVITDDEDYYEIRTSVQDFYKVKENLEKMGVEIARAELTKIPTTTVKITNEETATKLMKLLDALEDNDDVQKVYANFDIPEELLQKIEG
>NC_012438.1|WP_012673757.1|974733_975195_+|crossover-junction-endodeoxyribonuclease-RuvC
MKIISLDPSTSKTGYAVAEVYEDKISLIEYGSILLKGKKNTLKLLFETLQDKINQHSIEAVILETPFYSINAQTLIKLGEVRGVILLLAQINNLKVFQYTPAEVKIAATGYGRSSKEEVINMVNRIFNLDIQDSDIADSLAILYCHTLQKVEV
>NC_012438.1|WP_012674927.1|975191_975488_+|hypothetical-protein
MKKFILTLIATVSLSFGQTCDGMFAVYDSCYDSNNCDESYNAVYNLSLSAGLSTQVSEKMAKICRYSCENKKATVKKLSKEDFQSAFCPHVKKEEKKQ
>NC_012438.1|WP_012673457.1|975484_976120_+|RdgB/HAM1-family-non-canonical-purine-NTP-pyrophosphatase
MKILVATTNEGKLREIKSILSDLDVELLSLKDMDNIIDVEEDRKTFLENAIKKATQYANFYKLPVIAEDSGLEVDALEGYPGVYSARFYSIDYGGKVEDESLSKDEKNNLKLLKLLEGKQNRKGRYKTVVVYYDPEKAVGIWTEGVCEGEIGKKPEGSGGFGYDPIFIPEGYDKTMAQLPPEEKNKISHRGKALNKLKELLIKIGVVKVGN
>NC_012438.1|WP_012674416.1|976109_976322_+|MoaD/ThiS-family-protein
MEIKVNYRGQEKILSFDKDKVKAKDVLKALGLSKDFAFVVKNGEIVDENETITQNDEVRVINAISGGKNN

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Crispr_ID: NC_012438_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_7

1002144-1002836

Orphan

Consensus_repeat	Method
GTTTTTAGAGTGCCTATAA-GGAATTGAAAC	PILER-CR
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	CRT

10 spacers

The CRISPR arrays of NC_012438_7

>merge|NC_012438|7|1002144-1002836|PILER-CR,CRT
GTTTTTAGAGTGCCTATAAGGAATTGAAACTCATGTAAATCTCTCAATTGTCACTTGAGAATAGCATGTTTTTAGAGTGCCTATAAGGAATTGAAACTTGCGTTCAAAATTCGCAAACTATTGAATACTACTGGTTTTTAGAGTGCCTATAAGGAATTGAAACCGCGGTTTTCAAGACTATTGAAAAAATCAATAGAGGGTTTTTAGAGTGCCTATAAGGAATTGAAACTATACTTTAGGTCTATTCCGTTTTTTTCTGTTGAAAGTTTTTAGAGTGCCTATAAGGAATTGAAACGTTGTTCTATCGGAGCTTTTAGTTCAAGCTGTACCAGTTTTTAGAGTGCCTATAAGGAATTGAAACAAACTTCAATTAGCTGGAGTTTTAAATGGTTTAAATAGTTTTTAGAGTGCCTATAAGGAATTGAAACATTTTTGATATGTAAATTGTAATATAAGATTAGTTAGTTTTTAGAGTGCCTATGAGGAATTGAAACTTGTTGTTTCTGTGGGTTCTTTCCCTGTCCTGTTGGGTTTTTAGAGTGCCTATAAGGAATTGAAACCGTTCAATACAGGGTCGTCGTATGCATTCTGATGCGGTTTTTAGCGTGCCTATGAGGAATTGAAACTTATTCTTGCTGGTTTGCGAGCTTCTTTAAGGAGCTCGTTTTTAGTGTACCTATGAGGAATTGAAGG

>NC_012438|7|8|1002144-1002769|PILER-CR
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TCATGTAAATCTCTCAATTGTCACTTGAGAATAGCAT
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TTGCGTTCAAAATTCGCAAACTATTGAATACTACTG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	CGCGGTTTTCAAGACTATTGAAAAAATCAATAGAGG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TATACTTTAGGTCTATTCCGTTTTTTTCTGTTGAAA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	GTTGTTCTATCGGAGCTTTTAGTTCAAGCTGTACCA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	AAACTTCAATTAGCTGGAGTTTTAAATGGTTTAAATA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	ATTTTTGATATGTAAATTGTAATATAAGATTAGTTA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTGTTTCTGTGGGTTCTTTCCCTGTCCTGTTGG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	CGTTCAATACAGGGTCGTCGTATGCATTCTGATGCG
GTTTTTAGCGTGCCTATGAGGAATTGAAAC

>NC_012438|7|7|1002144-1002836|CRT
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TCATGTAAATCTCTCAATTGTCACTTGAGAATAGCAT
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TTGCGTTCAAAATTCGCAAACTATTGAATACTACTG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	CGCGGTTTTCAAGACTATTGAAAAAATCAATAGAGG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	TATACTTTAGGTCTATTCCGTTTTTTTCTGTTGAAA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	GTTGTTCTATCGGAGCTTTTAGTTCAAGCTGTACCA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	AAACTTCAATTAGCTGGAGTTTTAAATGGTTTAAATA
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	ATTTTTGATATGTAAATTGTAATATAAGATTAGTTA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTGTTTCTGTGGGTTCTTTCCCTGTCCTGTTGG
GTTTTTAGAGTGCCTATAAGGAATTGAAAC	CGTTCAATACAGGGTCGTCGTATGCATTCTGATGCG
GTTTTTAGCGTGCCTATGAGGAATTGAAAC	TTATTCTTGCTGGTTTGCGAGCTTCTTTAAGGAGCTC
GTTTTTAGTGTACCTATGAGGAATTGAAGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041675853.1\|1003430_1003970_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|366703
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|181268
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132844
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	unknown	unknown	gnl\|CDD\|376373
NC_012438.1\|WP_012674993.1\|994690_995317_+\|polyphenol-oxidase-family-protein	unknown	unknown	gnl\|CDD\|319354
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|369163
NC_012438.1\|WP_012674247.1\|995319_996156_+\|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta	unknown	unknown	gnl\|CDD\|235547
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	unknown	unknown	gnl\|CDD\|224988
NC_012438.1\|WP_012673585.1\|992051_994643_-\|[protein-PII]-uridylyltransferase	unknown	unknown	gnl\|CDD\|273761
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224094
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	unknown	unknown	gnl\|CDD\|377422
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223674
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	unknown	unknown	gnl\|CDD\|349770
NC_012438.1\|WP_012673773.1\|1012843_1013680_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	unknown	unknown	gnl\|CDD\|223389
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224055
NC_012438.1\|WP_012673930.1\|1014021_1014381_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	unknown	unknown	gnl\|CDD\|234614

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|366703	pfam01551, Peptidase_M23, Peptidase family M23. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.	6.44518e-32
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|181268	PRK08175, PRK08175, aminotransferase; Validated.	0
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132844	cd07205, Pat_PNPLA6_PNPLA7_NTE1_like, Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1. Patatin-like phospholipase domain containing protein 6 (PNPLA6) and protein 7 (PNPLA7) are included in this family. PNPLA6 is commonly known as Neuropathy Target Esterase (NTE). NTE has at least two functional domains: the N-terminal domain putatively regulatory domain and the C-terminal catalytic domain which shows esterase activity. NTE shows phospholipase activity for lysophosphatidylcholine (LPC) and phosphatidylcholine (PC). Exposure of NTE to organophosphates leads to organophosphate-induced delayed neurotoxicity (OPIDN). OPIDN is a progressive neurological condition that is characterized by weakness, paralysis, pain, and paresthesia. PNPLA7 is an insulin-regulated phospholipase that is homologus to Neuropathy Target Esterase (NTE or PNPLA6) and is also known as NTE-related esterase (NRE). Human NRE is predominantly expressed in prostate, white adipose, and pancreatic tissue. NRE hydrolyzes sn-1 esters in lysophosphatidylcholine and lysophosphatidic acid, but shows no lipase activity with substrates like triacylglycerols (TG), cholesteryl esters, retinyl esters (RE), phosphatidylcholine (PC), or monoacylglycerol (MG). This family includes subfamily of PNPLA6 (NTE) and PNPLA7 (NRE)-like phospholipases.	9.82627e-75
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	gnl\|CDD\|376373	pfam00708, Acylphosphatase, Acylphosphatase.	2.2619e-29
NC_012438.1\|WP_012674993.1\|994690_995317_+\|polyphenol-oxidase-family-protein	gnl\|CDD\|319354	cd16833, YfiH, protein of unknown function YfiH. This subfamily contains YfiH, a protein of unknown function from Shigella flexneri, E. coli, and many similar proteins which collectively are often called DUF152. The structure of YfiH reveals a distant homology to Rho-activating toxins cytotoxic necrotizing factor 1 (CNF1) as well as chemotaxis protein CheD that stimulates methylation of methyl-accepting chemotaxis proteins (MCPs), all having an invariant Cys-His pair forming a catalytic dyad, and is required by the CNF-1 toxins for deamidation activity.	5.46616e-50
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.73653e-21
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	gnl\|CDD\|369163	pfam06992, Phage_lambda_P, Replication protein P. This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin.	0.00343249
NC_012438.1\|WP_012674247.1\|995319_996156_+\|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta	gnl\|CDD\|235547	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta.	5.63567e-166
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	gnl\|CDD\|224988	COG2077, Tpx, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones].	1.36551e-73
NC_012438.1\|WP_012673585.1\|992051_994643_-\|[protein-PII]-uridylyltransferase	gnl\|CDD\|273761	TIGR01693, UTase_glnD, [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family. [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, Protein interactions].	2.62144e-172
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	1.13072e-95
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	gnl\|CDD\|377422	pfam04932, Wzy_C, O-Antigen ligase. This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria. This family includes O-antigen ligases such as E. coli RfaL.	1.41251e-08
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	gnl\|CDD\|223674	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	7.61871e-122
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	gnl\|CDD\|349770	cd03116, MobB, molybdopterin-guanine dinucleotide biosynthesis protein B. Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In Escherichia coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.	5.03466e-36
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	gnl\|CDD\|223389	COG0312, TldD, Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only].	1.49961e-140
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224055	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms].	1.18461e-129
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	gnl\|CDD\|234614	PRK00074, guaA, GMP synthase; Reviewed.	0

>NC_012438.1|WP_041675851.1|1001503_1001863_+|hypothetical-protein
MSRKGSGDIRLGNNADTLIEDYKSVLEYPPELPDAYSHHNYWMLTDVRDAIERLGLSEDERVKALDIELLKRLKKYGPPAYREKERPDYWWWHLDDIYKGTYPEEKLPGHLRDWNNGKN
>NC_012438.1|WP_012674697.1|1000421_1001483_+|ABC-transporter-permease
MKEVFKYIKKNKFAYISLYILGIFYFLALFADFIAPYPYDIQHRDTPYHPPTQIHFFDEKGNFHLRPFVYKYDFVDPVFKSYKVNYDVKYPVEFFVRGHEHYLLGFIKTDLHLFGVKEGKIFLLGADNLGRDIFSRMLYASRISLSIGIIGVLLSFTIGAVIGGVAGYFGGKVDNILMRLSEIVMSFPGFYLMLALRAVFPITLSSVEVFLLIVVILSFVGWAGLARVVRGMVLSIREQEYVLAAKSYGASSFRIIAKHILPNTFSYLLIAATLSIPGYILGESALSLLGLGIQEPYASWGNMLSSARSITAISSYPWILAPGVAIFLTILAFNLLGDALRDALDPKLKRLIK
>NC_012438.1|WP_012673739.1|999438_1000425_+|ABC-transporter-permease
MILYILKRLLQMIPLIVGITFLSFVIIQMAPGDYLDQLRMNPQISESTIEKLKQTYGLDQPILIQYFKWLSNALLFDLGFSFSYNMPVLDLIKDRVPNTLFLSITSGLLAWLLAVPLGIIAALRPNSIIDRFIQVFSFTFMSLPSFFLAFLLLFFAVKTGLLPTGGATSPGYESMPFWEKVLDRLWHVSLPAFVLAITSLAGLVRLVRSAMIEALQSEYVLFARAKGLTEKQVVLKHALRNALNPFITILGFEIASLLSGAALVEIIVNWPGMGMLMLDAVLSQDLYLVMGGLYIGSIMLIIGNLIADLLLAKLDPRIRQREVEGILK
>NC_012438.1|WP_012673667.1|998239_999439_+|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme
MPEEFPRIKRLPQYVFAVVNDLKARLRKEGEDIIDLGMGNPDLPPAPHIIEKLCESAKKKTTHRYSMSQGIPRLRKAITDFYKKRYDVDLDPEKEVIMTIGSKEGLAHLMLAMLEPGDIAMVPSPRYPIHYYAPVIAGASVLTVPLPLEGSDSEKQEQFLKNIYETYEDSYPEAKVLILNFPNNPTTMTVDLEFFKEIVAFAKKKNLWIIHDLAYGDLCYDGYKAPSILQVEGAKDIAVETYSMTKGFSMAGWRVAFVLGNETLVYNLKRLKSYLDYGTFTPIQVASIIALEGDYSVVEKARDTYSKRLDILVEGLNKAGWPVEKPKATMFLWAKIPEKFRHLGSIEFSKLLLTEGKVAVAPGIGFGEHGEGYVRFAVVENEKRIRQAISNIKKLMKKY
>NC_012438.1|WP_012673965.1|996897_998220_+|LysM-peptidoglycan-binding-domain-containing-protein
MSLKSSIKLGLISALIPFMAMAEVYEVKKGDTLEKIAKKYNVSIEDIKKANNIKDEKKLREGMKLKIPVKTSKQEKKKKVEVVEETYTVKKGDTLETIAKKYGITVKEIMDYNNMKDEKIFAGDELKIPLKGSEKKKEEKKEEVTTPSIDYSKCEVYTLKKGGTLKHVSKRTGVDVSILEKLNDIPSNQWLKAGTKVCLAPKKEKVEEKAPKSQDLENCTIIYNPTKKISLEEIARKFHTSTKKIREINNLPSSVKYVDSGQKVCVAVEDVSKSKNVVIEEKRETLKEEPKVKEESPTKEVPMPKKVEPKVANGDSLGIKLDWPVRGKVVAPFQNDDQVRHLGIDIQTECGAPVRASEDGKVIYAGDGIKAFGNLVVIRHNNGLTTVYGYLDSINVKEGRVVTKGETIGSAGRLKNSDNCGIYFEVRKNVTPLDPMTVLE
>NC_012438.1|WP_012674741.1|996650_996920_+|acylphosphatase
MQLHIIFAGRVQGVGFRKFVKKVANQMNVRGFVRNLPDGTVEVLAEADEETLKNFFQAIENGPPLASVNGIRYEFLEKEGGFDEFKIEY
>NC_012438.1|WP_012674184.1|996148_996646_+|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B
MDKPVVAIVGAHNSGKTTFIEKVVNILSSEGYNVCYIKHDPKGKAKTDTEGKDSYKVYQAGSKQVIVASPDKVSSFVRMRDYTLFDIIKNFTTQDIDIIIVEGFKTVKGIDKFEVIRKEENRQLMISKEGGLVGVITDYYQYNLTFDINNPQEFVIYLKNNYIKR
>NC_012438.1|WP_012674247.1|995319_996156_+|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta
MGLKDFIDKIKGRKKLKIEEGSWIKCEKCKTLLYIEDLIRNLKICPHCGYTFRMSAKERVDSLLDKVYSYDLFPKIKPVDILNFKDTKKYKDRIKEYQEKTGLNDAIIIANGLIYDREVVIASMDFNFMGGSMGSVVGAKFVRGVEFAIEKKIPFISVAASGGARMQESILSLMQMAKTAIAIDRLNKAGILYISVLTDPTMGGVSASFAFLGDIIIAEPESLIGFAGPRVIEQTIRQQLPEGFQRAEFLLEKGQIDMVVDRKNLKKTIYTLIKHTHG
>NC_012438.1|WP_012674993.1|994690_995317_+|polyphenol-oxidase-family-protein
MRLLTFDNILIAFTEKQDLNQREEKNRLPVQLSLGVDTIHIPNQKHTNKVVKVEEDLNQECDGIYTNKENTAVGVLTADCIPIVLFNSREIVVIHAGWKGLFGGIIENGFSLLKDKRAKAFIGACIRGCCYEVDKQFVNNLNISDKFYKIYNDKPYLDLVSAAVDKLIKLSVKDIYDLGECTKCSGKFFSYRNGDFESRILTAAVIKE
>NC_012438.1|WP_012673585.1|992051_994643_-|[protein-PII]-uridylyltransferase
MLEVLDLDTKKKILDNYNEKKKELILKHYAGESGLEIVRQLSDLTDQTIQDFAKISFPDLENVAIIVLGGYGRRELCFKSDIDISIVYTHEDISKLKVGIENFYYCLLDLKVDIGFSPRNIRTFLDLSKEDLTVATALLQGRFLYGNEEIFKTLTDRFKKLIKSRRRAYIEATLKARKIRYQNTGSSIYMMEPHVKEGEGGLRDFHEVYWIAKVLDDVNDYKYFVEKQIILEEEYIELMNAYDYLLKIRNQMHLLCNKKCDVLTFPLQEEVAKKLGYASPEADYEELRESVERMMRLYYLNAKSINNITNRILKNLIEQENPYEEYIPIDNVFIRTSKEIDILDPKKFERDPVNILKAFKYYKDYGLNFSSTLEYLLRKNERVLKNKVLTEEEKALIREIFSNISNLPRTLKKMQDFYVLDDIIPEFGYQRCHFQYDHYHKYTTDAHAIKALEELENLQRIDSPQKKHIYEIYKEIERKDLLIWAVFLHDIGKGHKTDHSELGAELSKNILERFGYPPADVETVSFLVRHHLDMAHISQRRNLHEPKVITEFVKLIKNKELLNMLTVLTYCDANAVGPGAWNDWKFALLMELYTKSTQLLTEGSIESIEKKAEEKRIKLLEILILELGKEKAVKHLNRLSDYYIVSTPIEDILKHVKLEDKLLSSNNKFSIHFEKNTGAGYSQVIIAIKDIDNPLLIITGILSYLGINILTAYSFERKDGVYLIDLQISTSSLEAVDEAKFSRFVEILENVLKDPSYFEKISVKRQKGFKASTVPPPIFVKVDNEMSEGYTIFDVSAEDRIGLLFDIIKVFASFDIYVHMVKASTQGLRARDAFYVRTKDKEKITDSNFLKNVQEKLLEVIKS
>NC_012438.1|WP_041675853.1|1003430_1003970_+|hypothetical-protein
MYGKKIELVIDGTIVDIANVNRARTQKIRRVRGKVWWAKRRRKIVRRDNGKVVEFEEVRYGMLMMVLCDRWGRVYDVWISFGSVHEVRAFRERKRRSLWFRELVENCVVYGDRGYRGCEGVIVCGSREMRAKRQVVEGVISQIKLFNAGSGWRTLTCVLVYVYAYAIGYSYYRRGELEV
>NC_012438.1|WP_083758893.1|1004015_1005188_+|O-antigen-ligase-family-protein
MKLLLLLFGLSWSITDSAVLIVYILLLIFLSVKIGLKNFRNKDSINLFILLLALWRVITCWIKGVVSINILSKNVKFLFDVSPIFVFRYAKVEHQFGYLFYSFILSLSLITALSILEFLGVVDLGFFQGGYLQAFHRNHIKSGFIWSLASLLSLVFTIKMNKKFIIFVPLLVTGLLFTQSRSYYLGFLGTAFIILILVGFKRSFKYSMFAISSIIFTFGLIYLIPEVRSRFLSIFTNIQAEWSIKCRLIFLEEGLKIVEKHPVFGIGFGQWPSYFSQINQIYKYPCPNYHVHNIFIHELVETGLIGLILLILILVIIVYKLLNAYFQLDIKNKFGEALILSGIAAIFNLIIGGLFEPDLVKSVVLIPTFTVLGFALAEADKLTRVATYRS
>NC_012438.1|WP_083758894.1|1005188_1005848_-|IS982-family-transposase
MSHSAYLFPYVPSLSRFSRRLHKLEPYLRTIIRKIGLSGRSPKRYFIDSKPIKVCENIRIPRARVLKGEEYRGYIPSKREYFFGFKLHALIDDRGLFREVHLLEGRLHDLEGLAVMSFWGVRGHEVIGDRAYVDYSFEDELANEGICLNPVRRVGENRYEGEWIEYFKRHARRLIESIFSVIYRFLGLRPYAPTKDGIVLKVLLSVLAFNLYRGFTLRL
>NC_012438.1|WP_012673904.1|1006538_1008074_+|glutamine-hydrolyzing-GMP-synthase
MHQGIVILDFGSQYTQLIARRIRELHIYSEILPYNTPVEEILKHNPKGIIFSGGPASVYEKDAPKPDERVYDLGLPILGICYGLQLITHHFGGEVVKADKHEYGRAEIQVLNHEDLFYEIPEFTHVWMSHADKVVKLPQGFEVLARSFNAPYAAVRNKEKKIWGVQFHPEVSHTLLGKEILKNFAVRICGCKQDWTMGNFLMEEIVKIRQTVGNKKAICALSGGVDSSVAAVLVHNAIGDNLTCIFVDNGLLRKGEREQVEKTFRDNFHIPLIVVDARERFLNALKGITDPEQKRKIIGNLFIEVFEEEAKKLKDVEFLVQGTLYPDVIESVSVKGPSAVIKTHHNVGGLPERMNLKLIEPLRELFKDEVRELGKELGLPDEIIYRQPFPGPGLAIRVIGEVTQESLDILREADAIVLEEIKKAGLYKDLWQSFAVLLPIHTVGVMGDYRTYEKVIAVRAVESSDGMTADWARLPYDLLDTIMRRIINEVKGVNRVVYDISSKPPATIEWE
>NC_012438.1|WP_012674166.1|1008075_1008828_+|patatin-like-phospholipase-family-protein
MKIGLVLSGGAVRGLAHVGVLKALEEKGIKPDFVSGVSAGSIVGVFYCSGYTPKEMEEIALKTNFTTMIKPSLSKKAFFSLDSIEDFLKKYIHHKKLEELKIPFYVTVTNLNTANVDFFSEGDLIKIIKASCSIPVMFKPVKIGEYYYVDGGIMNNLPVEPLLDKTQYIIGSEVNPFLPEEKDFSNVISIGIRSFYLAVRSNIESRKNYCNLFIQPPDLVKIPLFATWKSKEAIDIGYNYTKNLLKDLNL
>NC_012438.1|WP_041675855.1|1008808_1010467_-|ABC-transporter-ATP-binding-protein
MLALRFIYQRFKPYWVLLFFSLVGSLIEAASLSGLTLIVKDVIDKVFIEKDLEKLKFIILLILGLAILKQLGFILKEYLFPLALAKVVKNIREEIFKKIINVDFTAFLGKKYGDILSRATNDVEAFRNSMIFLGIDLFTQIFTVVAMVFVLVYMDWKLFTIFLVATPLFALSFNYFGNKRKKYSQKVQESASEYTQFLNQVISGLETVKLFKKEFILNIFEKINQTFFKNQRKSALYDVFFLSSIEVASYFAASGIILYGGIRIINGELTTGALFSFLSALLILVNSLQILQRGLLQVKVITPIVERILFVLDLPQEEEKGENFQTLKEKVKYENVSLKIDSHYILKDVNVEIKKGLKVGIVGPTGSGKSSFVKLLYGIYRNYEGKILLDDKELKDYSIKSLREKIAVVSQDVFIFNDTVENNLRIVKPDATQEEIIKALNLAKADFVFKHKDGIKMMVGERGSSLSGGERQRIAIARIFLKNPEIVIVDEGTSALDIETEKYVMDSIYTYFSDKTVLIIAHRLKTLEKCDKILFFENGKLIKEGTFKDLNL
>NC_012438.1|WP_012673470.1|1010572_1011082_-|thiol-peroxidase
MATTVNLKGNPVALAGPQLNVGDKAPEAVVVASDLSEKRIGGAKGKVQVIITVPSLDTPVCEKETKTFNEKCAGYDVDVTVVSMDLPFAEKRFCESFNIGNITVASDFRYRDMEKYGVLIAEGALKGILARAVFVVDKDGTVTYKQIVPEITEEPNYDEVLQAVANLLK
>NC_012438.1|WP_012675069.1|1011284_1012670_-|TldD/PmbA-family-protein
MKELIREKAPYILTALMADKGEYGEIFFEDLKSLTLNLEDNKIEKVNSGRDTGVGLRLIKNFKTNYGYTSDLTYENLLNLAKTLAKYEGEGKIAVGKSHYVGKTEVLIDPDEFDIRKKKDILERANEIARSYDERIKQVSVTLRDVKRDILIINSLGEIVEDHQVRVVFFVEAIASDGTSLYRGYEATGGSVGYELFNEDFIDVIDYVATKAAERAVLGLKAKPAPAGSFTVVMSSHAGGTMIHEAVGHGLEADLVNQGLSVYKGKLGQKVASDLVTVIDDGTLKGKNGSFTFDDEGVPAQRKVLIDNGVLVGYMYDRLTAMKEGKQSTGNGRRDGYKNIPIVRMTNTYIDAGKDNPSDIIKDTKDGIYVVKMGGGQVNTVNGDFVFEIIEGYRIENGEITYPIKGATLIGNGPQALMDIDAVGYDLGWAIGTCGKDGQRAPVSDAQPTVRIKRLTLGGVL
>NC_012438.1|WP_012673773.1|1012843_1013680_-|hypothetical-protein
MQLEKFYNILLKNFQSFKVSFYKNTAKSNAGRKPKITDEEIAAVFILSYITGMPVLKIARQFIDDSIKSYHIFRKSRIKRIYELLRIYLQMRILSVIIEVLVSNKKPRLIVDGTILPVANVNRAKTQRIKRFNGKKFWVRRKRNLYSQHYKKRVKFEEIYYGVLVMIICDTKGRVYDIWFHPASYHEVKSFRLRAKTSIWFKRLISLFEVIGDKGYRGCENVIVCETKEDKAQRQIIESVFSRLKQFNALSRWRKGITLLSYLYAYAIGYSFFRYCEV
>NC_012438.1|WP_012673930.1|1014021_1014381_+|hypothetical-protein
MGKKEIQDLFERLKDLLLVEKDLIVKAINDSQAVDQLNKVVEEKREVLLKLANYNPEDFKGFENMVREIQDLSKSNMILSQANLKFIESVFDSIFENASTYSTEGQIKKQSSSIINKKA

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Crispr_ID: NC_012438_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_8

1003192-1003415

Orphan

Consensus_repeat	Method
GTTTTTTCCCGACTATGAGGGAATTGAAGG	PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAGG	CRT

3 spacers

The CRISPR arrays of NC_012438_8

>merge|NC_012438|8|1003192-1003415|PILER-CR,CRISPRCasFinder,CRT
GTTTTTTCCCGACTATGAGGGAATTGAAGTTCTATAGACACGAGCTAGCGATTGCTGGTAATCTCGTTTTTTCCCGACTATGAGGGAATTGAAGGGTATTGCCGTCTAGAATATTTCACTCCCCACATTTGTTTTTTCCCGACTATGAGGGAATTGAAGGTGTTGTTTATTGTATACGAGATTTTTCCAGTGAAGTTTTTTCCCGACTATGAGGGAATTGAAGG

>NC_012438|8|9|1003192-1003415|PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAGT	TCTATAGACACGAGCTAGCGATTGCTGGTAATCTC
GTTTTTTCCCGACTATGAGGGAATTGAAGG	GTATTGCCGTCTAGAATATTTCACTCCCCACATTT
GTTTTTTCCCGACTATGAGGGAATTGAAGG	TGTTGTTTATTGTATACGAGATTTTTCCAGTGAA
GTTTTTTCCCGACTATGAGGGAATTGAAGG

>NC_012438|8|7|1003192-1003414|CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTCTATAGACACGAGCTAGCGATTGCTGGTAATCTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	GGTATTGCCGTCTAGAATATTTCACTCCCCACATTT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTGTTGTTTATTGTATACGAGATTTTTCCAGTGAA
GTTTTTTCCCGACTATGAGGGAATTGAAG

>NC_012438|8|8|1003192-1003415|CRT
GTTTTTTCCCGACTATGAGGGAATTGAAGT	TCTATAGACACGAGCTAGCGATTGCTGGTAATCTC
GTTTTTTCCCGACTATGAGGGAATTGAAGG	GTATTGCCGTCTAGAATATTTCACTCCCCACATTT
GTTTTTTCCCGACTATGAGGGAATTGAAGG	TGTTGTTTATTGTATACGAGATTTTTCCAGTGAA
GTTTTTTCCCGACTATGAGGGAATTGAAGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041675853.1\|1003430_1003970_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|366703
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|181268
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132844
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	unknown	unknown	gnl\|CDD\|376373
NC_012438.1\|WP_012674993.1\|994690_995317_+\|polyphenol-oxidase-family-protein	unknown	unknown	gnl\|CDD\|319354
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|369163
NC_012438.1\|WP_012674247.1\|995319_996156_+\|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta	unknown	unknown	gnl\|CDD\|235547
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	unknown	unknown	gnl\|CDD\|224988
NC_012438.1\|WP_012673585.1\|992051_994643_-\|[protein-PII]-uridylyltransferase	unknown	unknown	gnl\|CDD\|273761
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224094
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	unknown	unknown	gnl\|CDD\|377422
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223674
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	unknown	unknown	gnl\|CDD\|349770
NC_012438.1\|WP_012673773.1\|1012843_1013680_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	unknown	unknown	gnl\|CDD\|223389
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224055
NC_012438.1\|WP_012673930.1\|1014021_1014381_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	unknown	unknown	gnl\|CDD\|234614

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|366703	pfam01551, Peptidase_M23, Peptidase family M23. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.	6.44518e-32
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|181268	PRK08175, PRK08175, aminotransferase; Validated.	0
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132844	cd07205, Pat_PNPLA6_PNPLA7_NTE1_like, Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1. Patatin-like phospholipase domain containing protein 6 (PNPLA6) and protein 7 (PNPLA7) are included in this family. PNPLA6 is commonly known as Neuropathy Target Esterase (NTE). NTE has at least two functional domains: the N-terminal domain putatively regulatory domain and the C-terminal catalytic domain which shows esterase activity. NTE shows phospholipase activity for lysophosphatidylcholine (LPC) and phosphatidylcholine (PC). Exposure of NTE to organophosphates leads to organophosphate-induced delayed neurotoxicity (OPIDN). OPIDN is a progressive neurological condition that is characterized by weakness, paralysis, pain, and paresthesia. PNPLA7 is an insulin-regulated phospholipase that is homologus to Neuropathy Target Esterase (NTE or PNPLA6) and is also known as NTE-related esterase (NRE). Human NRE is predominantly expressed in prostate, white adipose, and pancreatic tissue. NRE hydrolyzes sn-1 esters in lysophosphatidylcholine and lysophosphatidic acid, but shows no lipase activity with substrates like triacylglycerols (TG), cholesteryl esters, retinyl esters (RE), phosphatidylcholine (PC), or monoacylglycerol (MG). This family includes subfamily of PNPLA6 (NTE) and PNPLA7 (NRE)-like phospholipases.	9.82627e-75
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	gnl\|CDD\|376373	pfam00708, Acylphosphatase, Acylphosphatase.	2.2619e-29
NC_012438.1\|WP_012674993.1\|994690_995317_+\|polyphenol-oxidase-family-protein	gnl\|CDD\|319354	cd16833, YfiH, protein of unknown function YfiH. This subfamily contains YfiH, a protein of unknown function from Shigella flexneri, E. coli, and many similar proteins which collectively are often called DUF152. The structure of YfiH reveals a distant homology to Rho-activating toxins cytotoxic necrotizing factor 1 (CNF1) as well as chemotaxis protein CheD that stimulates methylation of methyl-accepting chemotaxis proteins (MCPs), all having an invariant Cys-His pair forming a catalytic dyad, and is required by the CNF-1 toxins for deamidation activity.	5.46616e-50
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.73653e-21
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	gnl\|CDD\|369163	pfam06992, Phage_lambda_P, Replication protein P. This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin.	0.00343249
NC_012438.1\|WP_012674247.1\|995319_996156_+\|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta	gnl\|CDD\|235547	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta.	5.63567e-166
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	gnl\|CDD\|224988	COG2077, Tpx, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones].	1.36551e-73
NC_012438.1\|WP_012673585.1\|992051_994643_-\|[protein-PII]-uridylyltransferase	gnl\|CDD\|273761	TIGR01693, UTase_glnD, [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family. [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, Protein interactions].	2.62144e-172
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	1.13072e-95
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	gnl\|CDD\|377422	pfam04932, Wzy_C, O-Antigen ligase. This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria. This family includes O-antigen ligases such as E. coli RfaL.	1.41251e-08
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	gnl\|CDD\|223674	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	7.61871e-122
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	gnl\|CDD\|349770	cd03116, MobB, molybdopterin-guanine dinucleotide biosynthesis protein B. Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In Escherichia coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.	5.03466e-36
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	gnl\|CDD\|223389	COG0312, TldD, Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only].	1.49961e-140
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224055	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms].	1.18461e-129
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	gnl\|CDD\|234614	PRK00074, guaA, GMP synthase; Reviewed.	0

>NC_012438.1|WP_041675851.1|1001503_1001863_+|hypothetical-protein
MSRKGSGDIRLGNNADTLIEDYKSVLEYPPELPDAYSHHNYWMLTDVRDAIERLGLSEDERVKALDIELLKRLKKYGPPAYREKERPDYWWWHLDDIYKGTYPEEKLPGHLRDWNNGKN
>NC_012438.1|WP_012674697.1|1000421_1001483_+|ABC-transporter-permease
MKEVFKYIKKNKFAYISLYILGIFYFLALFADFIAPYPYDIQHRDTPYHPPTQIHFFDEKGNFHLRPFVYKYDFVDPVFKSYKVNYDVKYPVEFFVRGHEHYLLGFIKTDLHLFGVKEGKIFLLGADNLGRDIFSRMLYASRISLSIGIIGVLLSFTIGAVIGGVAGYFGGKVDNILMRLSEIVMSFPGFYLMLALRAVFPITLSSVEVFLLIVVILSFVGWAGLARVVRGMVLSIREQEYVLAAKSYGASSFRIIAKHILPNTFSYLLIAATLSIPGYILGESALSLLGLGIQEPYASWGNMLSSARSITAISSYPWILAPGVAIFLTILAFNLLGDALRDALDPKLKRLIK
>NC_012438.1|WP_012673739.1|999438_1000425_+|ABC-transporter-permease
MILYILKRLLQMIPLIVGITFLSFVIIQMAPGDYLDQLRMNPQISESTIEKLKQTYGLDQPILIQYFKWLSNALLFDLGFSFSYNMPVLDLIKDRVPNTLFLSITSGLLAWLLAVPLGIIAALRPNSIIDRFIQVFSFTFMSLPSFFLAFLLLFFAVKTGLLPTGGATSPGYESMPFWEKVLDRLWHVSLPAFVLAITSLAGLVRLVRSAMIEALQSEYVLFARAKGLTEKQVVLKHALRNALNPFITILGFEIASLLSGAALVEIIVNWPGMGMLMLDAVLSQDLYLVMGGLYIGSIMLIIGNLIADLLLAKLDPRIRQREVEGILK
>NC_012438.1|WP_012673667.1|998239_999439_+|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme
MPEEFPRIKRLPQYVFAVVNDLKARLRKEGEDIIDLGMGNPDLPPAPHIIEKLCESAKKKTTHRYSMSQGIPRLRKAITDFYKKRYDVDLDPEKEVIMTIGSKEGLAHLMLAMLEPGDIAMVPSPRYPIHYYAPVIAGASVLTVPLPLEGSDSEKQEQFLKNIYETYEDSYPEAKVLILNFPNNPTTMTVDLEFFKEIVAFAKKKNLWIIHDLAYGDLCYDGYKAPSILQVEGAKDIAVETYSMTKGFSMAGWRVAFVLGNETLVYNLKRLKSYLDYGTFTPIQVASIIALEGDYSVVEKARDTYSKRLDILVEGLNKAGWPVEKPKATMFLWAKIPEKFRHLGSIEFSKLLLTEGKVAVAPGIGFGEHGEGYVRFAVVENEKRIRQAISNIKKLMKKY
>NC_012438.1|WP_012673965.1|996897_998220_+|LysM-peptidoglycan-binding-domain-containing-protein
MSLKSSIKLGLISALIPFMAMAEVYEVKKGDTLEKIAKKYNVSIEDIKKANNIKDEKKLREGMKLKIPVKTSKQEKKKKVEVVEETYTVKKGDTLETIAKKYGITVKEIMDYNNMKDEKIFAGDELKIPLKGSEKKKEEKKEEVTTPSIDYSKCEVYTLKKGGTLKHVSKRTGVDVSILEKLNDIPSNQWLKAGTKVCLAPKKEKVEEKAPKSQDLENCTIIYNPTKKISLEEIARKFHTSTKKIREINNLPSSVKYVDSGQKVCVAVEDVSKSKNVVIEEKRETLKEEPKVKEESPTKEVPMPKKVEPKVANGDSLGIKLDWPVRGKVVAPFQNDDQVRHLGIDIQTECGAPVRASEDGKVIYAGDGIKAFGNLVVIRHNNGLTTVYGYLDSINVKEGRVVTKGETIGSAGRLKNSDNCGIYFEVRKNVTPLDPMTVLE
>NC_012438.1|WP_012674741.1|996650_996920_+|acylphosphatase
MQLHIIFAGRVQGVGFRKFVKKVANQMNVRGFVRNLPDGTVEVLAEADEETLKNFFQAIENGPPLASVNGIRYEFLEKEGGFDEFKIEY
>NC_012438.1|WP_012674184.1|996148_996646_+|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B
MDKPVVAIVGAHNSGKTTFIEKVVNILSSEGYNVCYIKHDPKGKAKTDTEGKDSYKVYQAGSKQVIVASPDKVSSFVRMRDYTLFDIIKNFTTQDIDIIIVEGFKTVKGIDKFEVIRKEENRQLMISKEGGLVGVITDYYQYNLTFDINNPQEFVIYLKNNYIKR
>NC_012438.1|WP_012674247.1|995319_996156_+|acetyl-CoA-carboxylase-carboxyltransferase-subunit-beta
MGLKDFIDKIKGRKKLKIEEGSWIKCEKCKTLLYIEDLIRNLKICPHCGYTFRMSAKERVDSLLDKVYSYDLFPKIKPVDILNFKDTKKYKDRIKEYQEKTGLNDAIIIANGLIYDREVVIASMDFNFMGGSMGSVVGAKFVRGVEFAIEKKIPFISVAASGGARMQESILSLMQMAKTAIAIDRLNKAGILYISVLTDPTMGGVSASFAFLGDIIIAEPESLIGFAGPRVIEQTIRQQLPEGFQRAEFLLEKGQIDMVVDRKNLKKTIYTLIKHTHG
>NC_012438.1|WP_012674993.1|994690_995317_+|polyphenol-oxidase-family-protein
MRLLTFDNILIAFTEKQDLNQREEKNRLPVQLSLGVDTIHIPNQKHTNKVVKVEEDLNQECDGIYTNKENTAVGVLTADCIPIVLFNSREIVVIHAGWKGLFGGIIENGFSLLKDKRAKAFIGACIRGCCYEVDKQFVNNLNISDKFYKIYNDKPYLDLVSAAVDKLIKLSVKDIYDLGECTKCSGKFFSYRNGDFESRILTAAVIKE
>NC_012438.1|WP_012673585.1|992051_994643_-|[protein-PII]-uridylyltransferase
MLEVLDLDTKKKILDNYNEKKKELILKHYAGESGLEIVRQLSDLTDQTIQDFAKISFPDLENVAIIVLGGYGRRELCFKSDIDISIVYTHEDISKLKVGIENFYYCLLDLKVDIGFSPRNIRTFLDLSKEDLTVATALLQGRFLYGNEEIFKTLTDRFKKLIKSRRRAYIEATLKARKIRYQNTGSSIYMMEPHVKEGEGGLRDFHEVYWIAKVLDDVNDYKYFVEKQIILEEEYIELMNAYDYLLKIRNQMHLLCNKKCDVLTFPLQEEVAKKLGYASPEADYEELRESVERMMRLYYLNAKSINNITNRILKNLIEQENPYEEYIPIDNVFIRTSKEIDILDPKKFERDPVNILKAFKYYKDYGLNFSSTLEYLLRKNERVLKNKVLTEEEKALIREIFSNISNLPRTLKKMQDFYVLDDIIPEFGYQRCHFQYDHYHKYTTDAHAIKALEELENLQRIDSPQKKHIYEIYKEIERKDLLIWAVFLHDIGKGHKTDHSELGAELSKNILERFGYPPADVETVSFLVRHHLDMAHISQRRNLHEPKVITEFVKLIKNKELLNMLTVLTYCDANAVGPGAWNDWKFALLMELYTKSTQLLTEGSIESIEKKAEEKRIKLLEILILELGKEKAVKHLNRLSDYYIVSTPIEDILKHVKLEDKLLSSNNKFSIHFEKNTGAGYSQVIIAIKDIDNPLLIITGILSYLGINILTAYSFERKDGVYLIDLQISTSSLEAVDEAKFSRFVEILENVLKDPSYFEKISVKRQKGFKASTVPPPIFVKVDNEMSEGYTIFDVSAEDRIGLLFDIIKVFASFDIYVHMVKASTQGLRARDAFYVRTKDKEKITDSNFLKNVQEKLLEVIKS
>NC_012438.1|WP_041675853.1|1003430_1003970_+|hypothetical-protein
MYGKKIELVIDGTIVDIANVNRARTQKIRRVRGKVWWAKRRRKIVRRDNGKVVEFEEVRYGMLMMVLCDRWGRVYDVWISFGSVHEVRAFRERKRRSLWFRELVENCVVYGDRGYRGCEGVIVCGSREMRAKRQVVEGVISQIKLFNAGSGWRTLTCVLVYVYAYAIGYSYYRRGELEV
>NC_012438.1|WP_083758893.1|1004015_1005188_+|O-antigen-ligase-family-protein
MKLLLLLFGLSWSITDSAVLIVYILLLIFLSVKIGLKNFRNKDSINLFILLLALWRVITCWIKGVVSINILSKNVKFLFDVSPIFVFRYAKVEHQFGYLFYSFILSLSLITALSILEFLGVVDLGFFQGGYLQAFHRNHIKSGFIWSLASLLSLVFTIKMNKKFIIFVPLLVTGLLFTQSRSYYLGFLGTAFIILILVGFKRSFKYSMFAISSIIFTFGLIYLIPEVRSRFLSIFTNIQAEWSIKCRLIFLEEGLKIVEKHPVFGIGFGQWPSYFSQINQIYKYPCPNYHVHNIFIHELVETGLIGLILLILILVIIVYKLLNAYFQLDIKNKFGEALILSGIAAIFNLIIGGLFEPDLVKSVVLIPTFTVLGFALAEADKLTRVATYRS
>NC_012438.1|WP_083758894.1|1005188_1005848_-|IS982-family-transposase
MSHSAYLFPYVPSLSRFSRRLHKLEPYLRTIIRKIGLSGRSPKRYFIDSKPIKVCENIRIPRARVLKGEEYRGYIPSKREYFFGFKLHALIDDRGLFREVHLLEGRLHDLEGLAVMSFWGVRGHEVIGDRAYVDYSFEDELANEGICLNPVRRVGENRYEGEWIEYFKRHARRLIESIFSVIYRFLGLRPYAPTKDGIVLKVLLSVLAFNLYRGFTLRL
>NC_012438.1|WP_012673904.1|1006538_1008074_+|glutamine-hydrolyzing-GMP-synthase
MHQGIVILDFGSQYTQLIARRIRELHIYSEILPYNTPVEEILKHNPKGIIFSGGPASVYEKDAPKPDERVYDLGLPILGICYGLQLITHHFGGEVVKADKHEYGRAEIQVLNHEDLFYEIPEFTHVWMSHADKVVKLPQGFEVLARSFNAPYAAVRNKEKKIWGVQFHPEVSHTLLGKEILKNFAVRICGCKQDWTMGNFLMEEIVKIRQTVGNKKAICALSGGVDSSVAAVLVHNAIGDNLTCIFVDNGLLRKGEREQVEKTFRDNFHIPLIVVDARERFLNALKGITDPEQKRKIIGNLFIEVFEEEAKKLKDVEFLVQGTLYPDVIESVSVKGPSAVIKTHHNVGGLPERMNLKLIEPLRELFKDEVRELGKELGLPDEIIYRQPFPGPGLAIRVIGEVTQESLDILREADAIVLEEIKKAGLYKDLWQSFAVLLPIHTVGVMGDYRTYEKVIAVRAVESSDGMTADWARLPYDLLDTIMRRIINEVKGVNRVVYDISSKPPATIEWE
>NC_012438.1|WP_012674166.1|1008075_1008828_+|patatin-like-phospholipase-family-protein
MKIGLVLSGGAVRGLAHVGVLKALEEKGIKPDFVSGVSAGSIVGVFYCSGYTPKEMEEIALKTNFTTMIKPSLSKKAFFSLDSIEDFLKKYIHHKKLEELKIPFYVTVTNLNTANVDFFSEGDLIKIIKASCSIPVMFKPVKIGEYYYVDGGIMNNLPVEPLLDKTQYIIGSEVNPFLPEEKDFSNVISIGIRSFYLAVRSNIESRKNYCNLFIQPPDLVKIPLFATWKSKEAIDIGYNYTKNLLKDLNL
>NC_012438.1|WP_041675855.1|1008808_1010467_-|ABC-transporter-ATP-binding-protein
MLALRFIYQRFKPYWVLLFFSLVGSLIEAASLSGLTLIVKDVIDKVFIEKDLEKLKFIILLILGLAILKQLGFILKEYLFPLALAKVVKNIREEIFKKIINVDFTAFLGKKYGDILSRATNDVEAFRNSMIFLGIDLFTQIFTVVAMVFVLVYMDWKLFTIFLVATPLFALSFNYFGNKRKKYSQKVQESASEYTQFLNQVISGLETVKLFKKEFILNIFEKINQTFFKNQRKSALYDVFFLSSIEVASYFAASGIILYGGIRIINGELTTGALFSFLSALLILVNSLQILQRGLLQVKVITPIVERILFVLDLPQEEEKGENFQTLKEKVKYENVSLKIDSHYILKDVNVEIKKGLKVGIVGPTGSGKSSFVKLLYGIYRNYEGKILLDDKELKDYSIKSLREKIAVVSQDVFIFNDTVENNLRIVKPDATQEEIIKALNLAKADFVFKHKDGIKMMVGERGSSLSGGERQRIAIARIFLKNPEIVIVDEGTSALDIETEKYVMDSIYTYFSDKTVLIIAHRLKTLEKCDKILFFENGKLIKEGTFKDLNL
>NC_012438.1|WP_012673470.1|1010572_1011082_-|thiol-peroxidase
MATTVNLKGNPVALAGPQLNVGDKAPEAVVVASDLSEKRIGGAKGKVQVIITVPSLDTPVCEKETKTFNEKCAGYDVDVTVVSMDLPFAEKRFCESFNIGNITVASDFRYRDMEKYGVLIAEGALKGILARAVFVVDKDGTVTYKQIVPEITEEPNYDEVLQAVANLLK
>NC_012438.1|WP_012675069.1|1011284_1012670_-|TldD/PmbA-family-protein
MKELIREKAPYILTALMADKGEYGEIFFEDLKSLTLNLEDNKIEKVNSGRDTGVGLRLIKNFKTNYGYTSDLTYENLLNLAKTLAKYEGEGKIAVGKSHYVGKTEVLIDPDEFDIRKKKDILERANEIARSYDERIKQVSVTLRDVKRDILIINSLGEIVEDHQVRVVFFVEAIASDGTSLYRGYEATGGSVGYELFNEDFIDVIDYVATKAAERAVLGLKAKPAPAGSFTVVMSSHAGGTMIHEAVGHGLEADLVNQGLSVYKGKLGQKVASDLVTVIDDGTLKGKNGSFTFDDEGVPAQRKVLIDNGVLVGYMYDRLTAMKEGKQSTGNGRRDGYKNIPIVRMTNTYIDAGKDNPSDIIKDTKDGIYVVKMGGGQVNTVNGDFVFEIIEGYRIENGEITYPIKGATLIGNGPQALMDIDAVGYDLGWAIGTCGKDGQRAPVSDAQPTVRIKRLTLGGVL
>NC_012438.1|WP_012673773.1|1012843_1013680_-|hypothetical-protein
MQLEKFYNILLKNFQSFKVSFYKNTAKSNAGRKPKITDEEIAAVFILSYITGMPVLKIARQFIDDSIKSYHIFRKSRIKRIYELLRIYLQMRILSVIIEVLVSNKKPRLIVDGTILPVANVNRAKTQRIKRFNGKKFWVRRKRNLYSQHYKKRVKFEEIYYGVLVMIICDTKGRVYDIWFHPASYHEVKSFRLRAKTSIWFKRLISLFEVIGDKGYRGCENVIVCETKEDKAQRQIIESVFSRLKQFNALSRWRKGITLLSYLYAYAIGYSFFRYCEV
>NC_012438.1|WP_012673930.1|1014021_1014381_+|hypothetical-protein
MGKKEIQDLFERLKDLLLVEKDLIVKAINDSQAVDQLNKVVEEKREVLLKLANYNPEDFKGFENMVREIQDLSKSNMILSQANLKFIESVFDSIFENASTYSTEGQIKKQSSSIINKKA

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Crispr_ID: NC_012438_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_9

1005986-1006404

Orphan

Consensus_repeat	Method
GTTTTTTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAG	CRT

6 spacers

The CRISPR arrays of NC_012438_9

>merge|NC_012438|9|1005986-1006404|PILER-CR,CRISPRCasFinder,CRT
GTTTTTTCCCGACTATGAGGGAATTGAAGTTCTATATTTGTTATTGTTCAAAAAGACGGATATGGGTTTTTTCCCGACTATGAGGGAATTGAAGCACGCTGGATAAGAAAAGGGAAAAGGACATCAGGACGTTTTTTCCCGACTATGAGGGAATTGAAGCAGTCTTAATTATTATAAAACTGATACAGAAGATAATGTTTTTTCCCGACTATGAGGGAATTGAAGGTAAACTTTCACTTCTTCGCTTTTTGTTTCTATTAAGTTTTTTCCCGACTATGAGGGAATTGAAGTTTGACGAGAAAATTGCATCTCTCTATACCTCTGCGGTTTTTTCCCGACTATGAGGGAATTGAAGGTAGATAGTATTACAGTTTTGTATAAAGCCATTTTGTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|9|10|1005986-1006404|PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTCTATATTTGTTATTGTTCAAAAAGACGGATATGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CACGCTGGATAAGAAAAGGGAAAAGGACATCAGGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CAGTCTTAATTATTATAAAACTGATACAGAAGATAAT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAAACTTTCACTTCTTCGCTTTTTGTTTCTATTAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTGACGAGAAAATTGCATCTCTCTATACCTCTGCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAGATAGTATTACAGTTTTGTATAAAGCCATTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|9|8|1005986-1006404|CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTCTATATTTGTTATTGTTCAAAAAGACGGATATGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CACGCTGGATAAGAAAAGGGAAAAGGACATCAGGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CAGTCTTAATTATTATAAAACTGATACAGAAGATAAT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAAACTTTCACTTCTTCGCTTTTTGTTTCTATTAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTGACGAGAAAATTGCATCTCTCTATACCTCTGCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAGATAGTATTACAGTTTTGTATAAAGCCATTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|9|9|1005986-1006404|CRT
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTCTATATTTGTTATTGTTCAAAAAGACGGATATGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CACGCTGGATAAGAAAAGGGAAAAGGACATCAGGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CAGTCTTAATTATTATAAAACTGATACAGAAGATAAT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAAACTTTCACTTCTTCGCTTTTTGTTTCTATTAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTGACGAGAAAATTGCATCTCTCTATACCTCTGCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	GTAGATAGTATTACAGTTTTGTATAAAGCCATTTT
GTTTTCTCCCGACTATGAGGGAATTGAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041675853.1\|1003430_1003970_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|366703
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|181268
NC_012438.1\|WP_012673930.1\|1014021_1014381_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	unknown	unknown	gnl\|CDD\|376373
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	unknown	unknown	gnl\|CDD\|224988
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|369163
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132844
NC_012438.1\|WP_012673773.1\|1012843_1013680_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224094
NC_012438.1\|WP_012675117.1\|1016175_1016979_+\|metal-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224033
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	unknown	unknown	gnl\|CDD\|377422
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223674
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	unknown	unknown	gnl\|CDD\|349770
NC_012438.1\|WP_012674884.1\|1014392_1015418_+\|zinc-binding-dehydrogenase	unknown	unknown	gnl\|CDD\|176227
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	unknown	unknown	gnl\|CDD\|223389
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224055
NC_012438.1\|WP_012674226.1\|1015414_1016179_+\|metal-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224046
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	unknown	unknown	gnl\|CDD\|234614

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673965.1\|996897_998220_+\|LysM-peptidoglycan-binding-domain-containing-protein	gnl\|CDD\|366703	pfam01551, Peptidase_M23, Peptidase family M23. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.	6.44518e-32
NC_012438.1\|WP_012673667.1\|998239_999439_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|181268	PRK08175, PRK08175, aminotransferase; Validated.	0
NC_012438.1\|WP_012674741.1\|996650_996920_+\|acylphosphatase	gnl\|CDD\|376373	pfam00708, Acylphosphatase, Acylphosphatase.	2.2619e-29
NC_012438.1\|WP_012673470.1\|1010572_1011082_-\|thiol-peroxidase	gnl\|CDD\|224988	COG2077, Tpx, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones].	1.36551e-73
NC_012438.1\|WP_083758894.1\|1005188_1005848_-\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.73653e-21
NC_012438.1\|WP_041675851.1\|1001503_1001863_+\|hypothetical-protein	gnl\|CDD\|369163	pfam06992, Phage_lambda_P, Replication protein P. This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin.	0.00343249
NC_012438.1\|WP_083758893.1\|1004015_1005188_+\|O-antigen-ligase-family-protein	gnl\|CDD\|377422	pfam04932, Wzy_C, O-Antigen ligase. This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria. This family includes O-antigen ligases such as E. coli RfaL.	1.41251e-08
NC_012438.1\|WP_012675117.1\|1016175_1016979_+\|metal-ABC-transporter-permease	gnl\|CDD\|224033	COG1108, ZnuB, ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism].	4.32432e-53
NC_012438.1\|WP_012674697.1\|1000421_1001483_+\|ABC-transporter-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	1.13072e-95
NC_012438.1\|WP_012673739.1\|999438_1000425_+\|ABC-transporter-permease	gnl\|CDD\|223674	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	7.61871e-122
NC_012438.1\|WP_012674184.1\|996148_996646_+\|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B	gnl\|CDD\|349770	cd03116, MobB, molybdopterin-guanine dinucleotide biosynthesis protein B. Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In Escherichia coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.	5.03466e-36
NC_012438.1\|WP_012674884.1\|1014392_1015418_+\|zinc-binding-dehydrogenase	gnl\|CDD\|176227	cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family. This group contains proteins related to the zinc-dependent alcohol dehydrogenases. However, while the group has structural zinc site characteristic of these enzymes, it lacks the consensus site for a catalytic zinc. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site, and a structural zinc in a lobe of the catalytic domain. NAD(H)-binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine, the ribose of NAD, a serine, then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction.	0
NC_012438.1\|WP_012673904.1\|1006538_1008074_+\|glutamine-hydrolyzing-GMP-synthase	gnl\|CDD\|234614	PRK00074, guaA, GMP synthase; Reviewed.	0
NC_012438.1\|WP_012675069.1\|1011284_1012670_-\|TldD/PmbA-family-protein	gnl\|CDD\|223389	COG0312, TldD, Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only].	1.49961e-140
NC_012438.1\|WP_041675855.1\|1008808_1010467_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224055	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms].	1.18461e-129
NC_012438.1\|WP_012674226.1\|1015414_1016179_+\|metal-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224046	COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism].	1.44504e-97
NC_012438.1\|WP_012674166.1\|1008075_1008828_+\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132844	cd07205, Pat_PNPLA6_PNPLA7_NTE1_like, Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1. Patatin-like phospholipase domain containing protein 6 (PNPLA6) and protein 7 (PNPLA7) are included in this family. PNPLA6 is commonly known as Neuropathy Target Esterase (NTE). NTE has at least two functional domains: the N-terminal domain putatively regulatory domain and the C-terminal catalytic domain which shows esterase activity. NTE shows phospholipase activity for lysophosphatidylcholine (LPC) and phosphatidylcholine (PC). Exposure of NTE to organophosphates leads to organophosphate-induced delayed neurotoxicity (OPIDN). OPIDN is a progressive neurological condition that is characterized by weakness, paralysis, pain, and paresthesia. PNPLA7 is an insulin-regulated phospholipase that is homologus to Neuropathy Target Esterase (NTE or PNPLA6) and is also known as NTE-related esterase (NRE). Human NRE is predominantly expressed in prostate, white adipose, and pancreatic tissue. NRE hydrolyzes sn-1 esters in lysophosphatidylcholine and lysophosphatidic acid, but shows no lipase activity with substrates like triacylglycerols (TG), cholesteryl esters, retinyl esters (RE), phosphatidylcholine (PC), or monoacylglycerol (MG). This family includes subfamily of PNPLA6 (NTE) and PNPLA7 (NRE)-like phospholipases.	9.82627e-75

>NC_012438.1|WP_083758894.1|1005188_1005848_-|IS982-family-transposase
MSHSAYLFPYVPSLSRFSRRLHKLEPYLRTIIRKIGLSGRSPKRYFIDSKPIKVCENIRIPRARVLKGEEYRGYIPSKREYFFGFKLHALIDDRGLFREVHLLEGRLHDLEGLAVMSFWGVRGHEVIGDRAYVDYSFEDELANEGICLNPVRRVGENRYEGEWIEYFKRHARRLIESIFSVIYRFLGLRPYAPTKDGIVLKVLLSVLAFNLYRGFTLRL
>NC_012438.1|WP_083758893.1|1004015_1005188_+|O-antigen-ligase-family-protein
MKLLLLLFGLSWSITDSAVLIVYILLLIFLSVKIGLKNFRNKDSINLFILLLALWRVITCWIKGVVSINILSKNVKFLFDVSPIFVFRYAKVEHQFGYLFYSFILSLSLITALSILEFLGVVDLGFFQGGYLQAFHRNHIKSGFIWSLASLLSLVFTIKMNKKFIIFVPLLVTGLLFTQSRSYYLGFLGTAFIILILVGFKRSFKYSMFAISSIIFTFGLIYLIPEVRSRFLSIFTNIQAEWSIKCRLIFLEEGLKIVEKHPVFGIGFGQWPSYFSQINQIYKYPCPNYHVHNIFIHELVETGLIGLILLILILVIIVYKLLNAYFQLDIKNKFGEALILSGIAAIFNLIIGGLFEPDLVKSVVLIPTFTVLGFALAEADKLTRVATYRS
>NC_012438.1|WP_041675853.1|1003430_1003970_+|hypothetical-protein
MYGKKIELVIDGTIVDIANVNRARTQKIRRVRGKVWWAKRRRKIVRRDNGKVVEFEEVRYGMLMMVLCDRWGRVYDVWISFGSVHEVRAFRERKRRSLWFRELVENCVVYGDRGYRGCEGVIVCGSREMRAKRQVVEGVISQIKLFNAGSGWRTLTCVLVYVYAYAIGYSYYRRGELEV
>NC_012438.1|WP_041675851.1|1001503_1001863_+|hypothetical-protein
MSRKGSGDIRLGNNADTLIEDYKSVLEYPPELPDAYSHHNYWMLTDVRDAIERLGLSEDERVKALDIELLKRLKKYGPPAYREKERPDYWWWHLDDIYKGTYPEEKLPGHLRDWNNGKN
>NC_012438.1|WP_012674697.1|1000421_1001483_+|ABC-transporter-permease
MKEVFKYIKKNKFAYISLYILGIFYFLALFADFIAPYPYDIQHRDTPYHPPTQIHFFDEKGNFHLRPFVYKYDFVDPVFKSYKVNYDVKYPVEFFVRGHEHYLLGFIKTDLHLFGVKEGKIFLLGADNLGRDIFSRMLYASRISLSIGIIGVLLSFTIGAVIGGVAGYFGGKVDNILMRLSEIVMSFPGFYLMLALRAVFPITLSSVEVFLLIVVILSFVGWAGLARVVRGMVLSIREQEYVLAAKSYGASSFRIIAKHILPNTFSYLLIAATLSIPGYILGESALSLLGLGIQEPYASWGNMLSSARSITAISSYPWILAPGVAIFLTILAFNLLGDALRDALDPKLKRLIK
>NC_012438.1|WP_012673739.1|999438_1000425_+|ABC-transporter-permease
MILYILKRLLQMIPLIVGITFLSFVIIQMAPGDYLDQLRMNPQISESTIEKLKQTYGLDQPILIQYFKWLSNALLFDLGFSFSYNMPVLDLIKDRVPNTLFLSITSGLLAWLLAVPLGIIAALRPNSIIDRFIQVFSFTFMSLPSFFLAFLLLFFAVKTGLLPTGGATSPGYESMPFWEKVLDRLWHVSLPAFVLAITSLAGLVRLVRSAMIEALQSEYVLFARAKGLTEKQVVLKHALRNALNPFITILGFEIASLLSGAALVEIIVNWPGMGMLMLDAVLSQDLYLVMGGLYIGSIMLIIGNLIADLLLAKLDPRIRQREVEGILK
>NC_012438.1|WP_012673667.1|998239_999439_+|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme
MPEEFPRIKRLPQYVFAVVNDLKARLRKEGEDIIDLGMGNPDLPPAPHIIEKLCESAKKKTTHRYSMSQGIPRLRKAITDFYKKRYDVDLDPEKEVIMTIGSKEGLAHLMLAMLEPGDIAMVPSPRYPIHYYAPVIAGASVLTVPLPLEGSDSEKQEQFLKNIYETYEDSYPEAKVLILNFPNNPTTMTVDLEFFKEIVAFAKKKNLWIIHDLAYGDLCYDGYKAPSILQVEGAKDIAVETYSMTKGFSMAGWRVAFVLGNETLVYNLKRLKSYLDYGTFTPIQVASIIALEGDYSVVEKARDTYSKRLDILVEGLNKAGWPVEKPKATMFLWAKIPEKFRHLGSIEFSKLLLTEGKVAVAPGIGFGEHGEGYVRFAVVENEKRIRQAISNIKKLMKKY
>NC_012438.1|WP_012673965.1|996897_998220_+|LysM-peptidoglycan-binding-domain-containing-protein
MSLKSSIKLGLISALIPFMAMAEVYEVKKGDTLEKIAKKYNVSIEDIKKANNIKDEKKLREGMKLKIPVKTSKQEKKKKVEVVEETYTVKKGDTLETIAKKYGITVKEIMDYNNMKDEKIFAGDELKIPLKGSEKKKEEKKEEVTTPSIDYSKCEVYTLKKGGTLKHVSKRTGVDVSILEKLNDIPSNQWLKAGTKVCLAPKKEKVEEKAPKSQDLENCTIIYNPTKKISLEEIARKFHTSTKKIREINNLPSSVKYVDSGQKVCVAVEDVSKSKNVVIEEKRETLKEEPKVKEESPTKEVPMPKKVEPKVANGDSLGIKLDWPVRGKVVAPFQNDDQVRHLGIDIQTECGAPVRASEDGKVIYAGDGIKAFGNLVVIRHNNGLTTVYGYLDSINVKEGRVVTKGETIGSAGRLKNSDNCGIYFEVRKNVTPLDPMTVLE
>NC_012438.1|WP_012674741.1|996650_996920_+|acylphosphatase
MQLHIIFAGRVQGVGFRKFVKKVANQMNVRGFVRNLPDGTVEVLAEADEETLKNFFQAIENGPPLASVNGIRYEFLEKEGGFDEFKIEY
>NC_012438.1|WP_012674184.1|996148_996646_+|molybdopterin-guanine-dinucleotide-biosynthesis-protein-B
MDKPVVAIVGAHNSGKTTFIEKVVNILSSEGYNVCYIKHDPKGKAKTDTEGKDSYKVYQAGSKQVIVASPDKVSSFVRMRDYTLFDIIKNFTTQDIDIIIVEGFKTVKGIDKFEVIRKEENRQLMISKEGGLVGVITDYYQYNLTFDINNPQEFVIYLKNNYIKR
>NC_012438.1|WP_012673904.1|1006538_1008074_+|glutamine-hydrolyzing-GMP-synthase
MHQGIVILDFGSQYTQLIARRIRELHIYSEILPYNTPVEEILKHNPKGIIFSGGPASVYEKDAPKPDERVYDLGLPILGICYGLQLITHHFGGEVVKADKHEYGRAEIQVLNHEDLFYEIPEFTHVWMSHADKVVKLPQGFEVLARSFNAPYAAVRNKEKKIWGVQFHPEVSHTLLGKEILKNFAVRICGCKQDWTMGNFLMEEIVKIRQTVGNKKAICALSGGVDSSVAAVLVHNAIGDNLTCIFVDNGLLRKGEREQVEKTFRDNFHIPLIVVDARERFLNALKGITDPEQKRKIIGNLFIEVFEEEAKKLKDVEFLVQGTLYPDVIESVSVKGPSAVIKTHHNVGGLPERMNLKLIEPLRELFKDEVRELGKELGLPDEIIYRQPFPGPGLAIRVIGEVTQESLDILREADAIVLEEIKKAGLYKDLWQSFAVLLPIHTVGVMGDYRTYEKVIAVRAVESSDGMTADWARLPYDLLDTIMRRIINEVKGVNRVVYDISSKPPATIEWE
>NC_012438.1|WP_012674166.1|1008075_1008828_+|patatin-like-phospholipase-family-protein
MKIGLVLSGGAVRGLAHVGVLKALEEKGIKPDFVSGVSAGSIVGVFYCSGYTPKEMEEIALKTNFTTMIKPSLSKKAFFSLDSIEDFLKKYIHHKKLEELKIPFYVTVTNLNTANVDFFSEGDLIKIIKASCSIPVMFKPVKIGEYYYVDGGIMNNLPVEPLLDKTQYIIGSEVNPFLPEEKDFSNVISIGIRSFYLAVRSNIESRKNYCNLFIQPPDLVKIPLFATWKSKEAIDIGYNYTKNLLKDLNL
>NC_012438.1|WP_041675855.1|1008808_1010467_-|ABC-transporter-ATP-binding-protein
MLALRFIYQRFKPYWVLLFFSLVGSLIEAASLSGLTLIVKDVIDKVFIEKDLEKLKFIILLILGLAILKQLGFILKEYLFPLALAKVVKNIREEIFKKIINVDFTAFLGKKYGDILSRATNDVEAFRNSMIFLGIDLFTQIFTVVAMVFVLVYMDWKLFTIFLVATPLFALSFNYFGNKRKKYSQKVQESASEYTQFLNQVISGLETVKLFKKEFILNIFEKINQTFFKNQRKSALYDVFFLSSIEVASYFAASGIILYGGIRIINGELTTGALFSFLSALLILVNSLQILQRGLLQVKVITPIVERILFVLDLPQEEEKGENFQTLKEKVKYENVSLKIDSHYILKDVNVEIKKGLKVGIVGPTGSGKSSFVKLLYGIYRNYEGKILLDDKELKDYSIKSLREKIAVVSQDVFIFNDTVENNLRIVKPDATQEEIIKALNLAKADFVFKHKDGIKMMVGERGSSLSGGERQRIAIARIFLKNPEIVIVDEGTSALDIETEKYVMDSIYTYFSDKTVLIIAHRLKTLEKCDKILFFENGKLIKEGTFKDLNL
>NC_012438.1|WP_012673470.1|1010572_1011082_-|thiol-peroxidase
MATTVNLKGNPVALAGPQLNVGDKAPEAVVVASDLSEKRIGGAKGKVQVIITVPSLDTPVCEKETKTFNEKCAGYDVDVTVVSMDLPFAEKRFCESFNIGNITVASDFRYRDMEKYGVLIAEGALKGILARAVFVVDKDGTVTYKQIVPEITEEPNYDEVLQAVANLLK
>NC_012438.1|WP_012675069.1|1011284_1012670_-|TldD/PmbA-family-protein
MKELIREKAPYILTALMADKGEYGEIFFEDLKSLTLNLEDNKIEKVNSGRDTGVGLRLIKNFKTNYGYTSDLTYENLLNLAKTLAKYEGEGKIAVGKSHYVGKTEVLIDPDEFDIRKKKDILERANEIARSYDERIKQVSVTLRDVKRDILIINSLGEIVEDHQVRVVFFVEAIASDGTSLYRGYEATGGSVGYELFNEDFIDVIDYVATKAAERAVLGLKAKPAPAGSFTVVMSSHAGGTMIHEAVGHGLEADLVNQGLSVYKGKLGQKVASDLVTVIDDGTLKGKNGSFTFDDEGVPAQRKVLIDNGVLVGYMYDRLTAMKEGKQSTGNGRRDGYKNIPIVRMTNTYIDAGKDNPSDIIKDTKDGIYVVKMGGGQVNTVNGDFVFEIIEGYRIENGEITYPIKGATLIGNGPQALMDIDAVGYDLGWAIGTCGKDGQRAPVSDAQPTVRIKRLTLGGVL
>NC_012438.1|WP_012673773.1|1012843_1013680_-|hypothetical-protein
MQLEKFYNILLKNFQSFKVSFYKNTAKSNAGRKPKITDEEIAAVFILSYITGMPVLKIARQFIDDSIKSYHIFRKSRIKRIYELLRIYLQMRILSVIIEVLVSNKKPRLIVDGTILPVANVNRAKTQRIKRFNGKKFWVRRKRNLYSQHYKKRVKFEEIYYGVLVMIICDTKGRVYDIWFHPASYHEVKSFRLRAKTSIWFKRLISLFEVIGDKGYRGCENVIVCETKEDKAQRQIIESVFSRLKQFNALSRWRKGITLLSYLYAYAIGYSFFRYCEV
>NC_012438.1|WP_012673930.1|1014021_1014381_+|hypothetical-protein
MGKKEIQDLFERLKDLLLVEKDLIVKAINDSQAVDQLNKVVEEKREVLLKLANYNPEDFKGFENMVREIQDLSKSNMILSQANLKFIESVFDSIFENASTYSTEGQIKKQSSSIINKKA
>NC_012438.1|WP_012674884.1|1014392_1015418_+|zinc-binding-dehydrogenase
MRAAYYDRLEGYKAIKIGDFPAPEISEDEVLVNIKAFSLNHLDVWVMEGKYPANIPLPHIFASDGAGVVAKVGKNVKHLKEGDRVVVFSGLSCGVCEKCLSGKDNECNSFRPLGVLEDGVSAEYVKVPAVNVFKIPENLSFEKASCIPITYITSWHSLITRSGIKQGDTVLIHGGGSGVGTALIQIAKLYNATVITTVGDDWKVEKCKEIGADFVINYNKEDFVEKVKEYTKDQLCDIVVDHIGAATFSKSLSCGKRGGKVVTFGSTTGADTQVNLRYIFGKNLTIHGVYMGTKGEFATMLKLFPDKLDPVIDSIFDLEDVQKAYEKLLSRQFFGKIVVRV
>NC_012438.1|WP_012674226.1|1015414_1016179_+|metal-ABC-transporter-ATP-binding-protein
MIKIENLYVEINSNTVLEDISLEIKKGEIVAIVGPNGGGKTTLIKVILGFIKPSKGVVLIEGKTPQEYVKSGKIGYLPQRSNYDRDFPVSAFDVVMFGLVNSKLSRKEKEKKVLEYLRYVGMEEFKDHPFGKLSGGQQQRVMIARAVICEPELLILDEPATGVDVVAQESFYEFIKKLNKEKGITVIMVTHDIGAVGSFTTKVVGLNRKLHYLGEYVNFLSKESLEKLYGSEVKLLIHSPECFTCQYFNIEVKH
>NC_012438.1|WP_012675117.1|1016175_1016979_+|metal-ABC-transporter-permease
MIDFLSIPFIRNAIVGGILIAVLLSVLSLFVFVKRWSFINIGISHAAFGGLAIGFFLGINPTIVGSIFAVLVGILIGYISKKGQIHEDISIGILLSFSMALGVVVMSFSNNYNSDLFAFLFGNILTISSQDILMIFIFSTFSLIFLFYNLEKLMYCCFDEELAYIGGVKTDFLYYSVITIIAIATVLSIKLVGSILSSAMIILPAAVASQLFWRYKSIIAASIVISVIVVLVGIFLSFEYNLPSGSTIVILYSLLFFIVLLVKRILR

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Crispr_ID: NC_012438_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_10

1081330-1081816

TypeV

Consensus_repeat	Method
GTTTTCTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRT

7 spacers

cas14k

The CRISPR arrays of NC_012438_10

>merge|NC_012438|10|1081330-1081816|PILER-CR,CRISPRCasFinder,CRT
GTTTTCTCCCGACTATGAGGGAATTGAAGTCGGGATTCTGTTAATAAAATTAATAACAATCAAAAGTTTTCTCCCGACTATGAGGGAATTGAAGTCCCGATCTAGATGCTCAAGCATTTTGTCAAACAAAAGTTTTCTCCCGACTATGAGGGAATTGAAGAAAAAATTAAGATCTTAGAGCTTTCAGCGAATGAAAGTTTTCTCCCGACTATGAGGGAATTGAAGGCAGTCAATGATAAATCTTTGTTTACTCTGTATTTTGGTTTTCTCCCGACTATGAGGGAATTGAAGATAGCAAAACCTGCTATGCCAAATCAGGTAAATCAGGTTTTCTCCCGACTATGAGGGAATTGAAGTATATTAGAAAGGATTAAGTAATTGAAAAATAAGGGGTTTTCTCCCGACTATGAGGGAATTGAAGTAATAATGCCTCCTTTGATTTTAATTGTTTAATACCGTTTTTTCCCGACTATGAGGGTGAAGATGA

>NC_012438|10|11|1081330-1081750|PILER-CR
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGGGATTCTGTTAATAAAATTAATAACAATCAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCCCGATCTAGATGCTCAAGCATTTTGTCAAACAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAAATTAAGATCTTAGAGCTTTCAGCGAATGAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTCAATGATAAATCTTTGTTTACTCTGTATTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGCAAAACCTGCTATGCCAAATCAGGTAAATCAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TATATTAGAAAGGATTAAGTAATTGAAAAATAAGGG
GTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|10|9|1081330-1081816|CRISPRCasFinder
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGGGATTCTGTTAATAAAATTAATAACAATCAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCCCGATCTAGATGCTCAAGCATTTTGTCAAACAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAAATTAAGATCTTAGAGCTTTCAGCGAATGAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTCAATGATAAATCTTTGTTTACTCTGTATTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGCAAAACCTGCTATGCCAAATCAGGTAAATCAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TATATTAGAAAGGATTAAGTAATTGAAAAATAAGGG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TAATAATGCCTCCTTTGATTTTAATTGTTTAATACC
GTTTTTTCCCGACTATGAGGGTGAAGATGA

>NC_012438|10|10|1081330-1081815|CRT
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCGGGATTCTGTTAATAAAATTAATAACAATCAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	TCCCGATCTAGATGCTCAAGCATTTTGTCAAACAAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAAATTAAGATCTTAGAGCTTTCAGCGAATGAAA
GTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTCAATGATAAATCTTTGTTTACTCTGTATTTTG
GTTTTCTCCCGACTATGAGGGAATTGAAG	ATAGCAAAACCTGCTATGCCAAATCAGGTAAATCAG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TATATTAGAAAGGATTAAGTAATTGAAAAATAAGGG
GTTTTCTCCCGACTATGAGGGAATTGAAG	TAATAATGCCTCCTTTGATTTTAATTGTTTAATACC
GTTTTTTCCCGACTATGAGGGTGAAGATG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	unknown	unknown	gnl\|CDD\|235591
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|234616
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	cas14k	-	gnl\|CDD\|223747
NC_012438.1\|WP_012674266.1\|1082225_1082498_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NC_012438.1\|WP_012674568.1\|1071421_1072324_+\|PDC-sensor-domain-containing-protein	unknown	unknown	gnl\|CDD\|350341
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	unknown	unknown	gnl\|CDD\|181800
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	unknown	unknown	gnl\|CDD\|237867
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	unknown	unknown	gnl\|CDD\|173089
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	unknown	unknown	gnl\|CDD\|236959
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	unknown	unknown	gnl\|CDD\|224131
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	unknown	unknown	gnl\|CDD\|368440
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	unknown	unknown	gnl\|CDD\|223255
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	unknown	unknown	gnl\|CDD\|377364
NC_012438.1\|WP_012674250.1\|1081864_1082239_+\|HEPN-domain-containing-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|379646
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	unknown	unknown	gnl\|CDD\|236450
NC_012438.1\|WP_012674259.1\|1072329_1073307_-\|bifunctional-oligoribonuclease/PAP-phosphatase-NrnA	unknown	unknown	gnl\|CDD\|223691

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	gnl\|CDD\|235591	PRK05755, PRK05755, DNA polymerase I; Provisional.	3.03589e-137
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.36713e-21
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	gnl\|CDD\|234616	PRK00076, recR, recombination protein RecR; Reviewed.	5.51428e-95
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.78169e-15
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	4.65763e-106
NC_012438.1\|WP_012674568.1\|1071421_1072324_+\|PDC-sensor-domain-containing-protein	gnl\|CDD\|350341	cd18773, PDC1_HK_sensor, first PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins, diguanylate-cyclase and similar domains. Histidine kinase (HK) receptors are part of two-component systems (TCS) in bacteria that play a critical role for sensing and adapting to environmental changes. Typically, HK receptors contain an extracellular sensing domain flanked by two transmembrane helices, an intracellular dimerization histidine phosphorylation domain (DHp), and a C-terminal kinase domain, with many variations on this theme. HK receptors in this family contain double PDC (PhoQ/DcuS/CitA) sensor domains. Signals detected by the sensor domain are transmitted through DHp to the kinase domain, resulting in the phosphorylation of a conserved histidine residue in DHp; phosphotransfer to a conserved aspartate in its cognate response regulator (RR) follows, which leads to the activation of genes for downstream cellular responses. The HK family includes not just histidine kinase receptors but also sensors for chemotaxis proteins and diguanylate cyclase receptors, implying a combinatorial molecular evolution.	5.46622e-08
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	gnl\|CDD\|181800	PRK09362, PRK09362, phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed.	8.20803e-143
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	gnl\|CDD\|173089	PRK14626, PRK14626, YbaB/EbfC family nucleoid-associated protein.	5.27139e-58
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	gnl\|CDD\|236959	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional.	6.56995e-57
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.82382e-11
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	gnl\|CDD\|224131	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane].	1.76006e-147
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	gnl\|CDD\|368440	pfam05433, Rick_17kDa_Anti, Glycine zipper 2TM domain. This family includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs. This family includes several Rickettsia genus specific 17 kDa surface antigen proteins.	0.000759716
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	gnl\|CDD\|223255	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair].	2.70256e-47
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	gnl\|CDD\|377364	pfam04456, DUF503, Protein of unknown function (DUF503). Family of hypothetical bacterial proteins.	1.93944e-35
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	gnl\|CDD\|237867	PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional.	0
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	gnl\|CDD\|379646	pfam14559, TPR_19, Tetratricopeptide repeat.	0.00025659
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	gnl\|CDD\|236450	PRK09283, PRK09283, porphobilinogen synthase.	0
NC_012438.1\|WP_012674259.1\|1072329_1073307_-\|bifunctional-oligoribonuclease/PAP-phosphatase-NrnA	gnl\|CDD\|223691	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only].	2.29802e-69

>NC_012438.1|WP_041675864.1|1080083_1080794_-|16S-rRNA-(uracil(1498)-N(3))-methyltransferase
MSYPLFIGKFEGDFLVLTDDEYHHAVKVRRLKEGDKVEVNDLQGNIYLGEILKIEKNKALIKPIQKQDIKIPDYKITLYQCMPNQLSKIDDIIEPISQLGVDRFVPVLSKNSAVKQSDVEKKIQKWEKIALNSIKQCRRLYPVSIDKPVKLSNINSYDDLKVVFYEKEYERKTKDLIGKTFQNCSIVIGNEGGFKEDEINLLVDKGFLPLSLGNYILKMETAIIVGICQIKIILER
>NC_012438.1|WP_012673894.1|1079649_1080078_-|glycine-zipper-2TM-domain-containing-protein
MKKVVALTLAGSILLASCAEYYRPSQSTYEGGLIGAITGATAGAILTQNNKWKGGVIGGVIGAIAGATIAEISKRGAVEAVQTGQPVRYQTEDGRAVYEAKPLGYDAKTRCHKVQEKIYENGKLVKDQIKEVCESEKVEQKY
>NC_012438.1|WP_012674839.1|1078660_1079638_-|porphobilinogen-synthase
MGFPINRYRRLRKNENIRRLVRETTLSVDDLIYPIFIEDGQNIKKEIPSMPGIYRWSLDRINEELDEVVSLGIPAVLLFGIPSYKDEVGSDTWNDEGIIQRAIKHIKKNYPNLYVITDVCFCEYTSHGHCGVLHNHDVDNDLTLENTRKQVISHAKAGADMVAPSGMMDGVVKTIREALDSAGFYDIPIMAYSAKYASSYYGPFREAADSTPAFGDRRTYQMDPANRLEALREVALDIEEGADIVMVKPALAYLDIIRDIKNNFNIPLAAYNVSGEYSMIKAAGKLGWIDEKKVMMETLTSIKRAGSDIIITYFAKEVARILKNG
>NC_012438.1|WP_012674129.1|1077771_1078668_-|5'-3'-exonuclease
MDKKLLLVDGSSYLYRAYYALPPLSAPDGTPTGAIYGFVRMLLKLISTFNTPYIAVVFDRPEKTVRHKIYKEYKATRKETPNDLQVQIPKIKEIIKLLGIKILEIPGYEADDIIATLSKKAENRSFEVIIVTPDKDMNQLIDQHIKIFNPMKEEIVDTQKVIEKYGVSPQQFIDYLVLVGDSIDNIPGIKGVGPKTAASLLQEFGSIDRILENKDKLKGKLKESFAAVSKEDIQLVRSLVKLHQDIDIPVEIESLKKDKPDLIKLKEIFEKLGFKSLIKEIEKPNLEKKQTIVQKSLF
>NC_012438.1|WP_012674728.1|1077427_1077772_-|endonuclease-III
MANFTEKELIDRLKKHFPQPWIDLNFENPYQLTVATILAAQSTDKKVNQITPIFFKKFPTPQDVAKAPLEEIEEIIKSINYYKRKAKLIKECCKKVVEEFGGKIPDNMEEYPFA
>NC_012438.1|WP_187145710.1|1076125_1077079_+|IS481-family-transposase
MTTLFPKKLSNKIKDIPLTKEAKKRLKWIQHYQDTKNISKTCRYFGISRTTFYKWFERYKKDGLEGLLDRPKTPKNTRKPTIRNQYREQIIKVRKQNPTWSKEKISAYLQEEKNIKVSPSTVYKVLKEEGLIERTKSIKIQNKRKKSIKKKRTKRGLQAQAPGDVVQIDVKHLNIAGATYYQFTAIDKYSRFCFARVYESKNSKKTKEFYIELNEYFEFEIKRVQTDNGSEFLGEFNKYLTDIGVEHYFSYPRSPKTNGVVERLIRTIEEELWLIEGLDYTLEEMNKKLRKYVRKYNFIRPHHSLGYKRPADIVYGV
>NC_012438.1|WP_012673626.1|1075042_1075891_+|IS982-family-transposase
MTFRDYIINVYILTDEILKLIKHKHKTNKPKFSDVELITLIIFSMSYRKGDYKITLKEFKENYNDLFPYVPQLPAIVKRAKKLYKLAQVISIILTNLFSEKITTVYIADTKPIPVCKNQRMKRNKKVSGKLYKGNNAAREWFGFKIRLIVDYYKRPIGYEIIPASKHDINFLKEVKEDSVLIDILNKGTIIADKAFNSKDLKEEFKSLGIELEAIRKKGKVHHKQKDKQEFLKRVRKRIETVFSKLYYMGIEDIRAVSLEGFKAKINFFILALSFATCLGLF
>NC_012438.1|WP_012674743.1|1073362_1074886_-|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MKPQEKIKRVFTIRVGGKERKRKVRTLLLDLAHFRNILTILITKYYTLYKEHLLNQSILYGLVAKNYTGKYKEEFEKVLKNIESNPELADLLIKLKNQKEKVDNPHYIQYIIRQTIKDFKSFFKSLESFKTNPEKFKEIPRPPKAKKLKYLMNFSVEGNVNTFKQEGDKIIIRLKNNKYLKVKLPKDFPYKISSLRIKLFGDDLYVDAVYEYPLKVEQPEGEYKAGIDIGLNELLSVVSENPELKSFIVSGKEIKAFNQWFNKEMSKLRAEIDNLKNSVKKGFIENQVATKKIYELELKMKSLSSHRKRWLDNNFHKIARKLVDLLHETGHKTIYIGKNAIESKNGIDLGKKTNQEFVSIPFRRLIKLIEYKAYEYGMEVIEVDESYTSKTSPLANIFEVKETKNKEVCQGKRDGDIFKDKVLNKVFHADLVGAVNIIRVGAKLLRLRFYENLKTFFIKLCNPVKLKLIDLFYKVSPESLWIGSSRWGASFPAGWMEKSGYLNTFGT
>NC_012438.1|WP_012674259.1|1072329_1073307_-|bifunctional-oligoribonuclease/PAP-phosphatase-NrnA
MEKTVPVIERLKREEKDILIFTHENPDGDGIGSMIALYLFLKKLGKNVTMAMKDDVPYVYNFLPHVNEIKKLPINHKFSVAILVDAAHRKRAGTEIQAHELIRIDHHVGGEFESIYDCVDDYSPSTTALVAELLRTWDESLVDKDIATCLYTGLITDTGSFKYNNTTSKTFEIAKFLTEKGADPHYISKMIFERNKVNVLLLLQKTLSTLQLYDNGQIAVLTVFREFLNETNTTEEDTEGFVNFARSIESVKVAVIMIQREDLKTWRVSLRGKGEVDVQEIAKYFGGGGHKDAAGCRIIGEYEKVKESLIEKISESVNRKVEVMR
>NC_012438.1|WP_012674568.1|1071421_1072324_+|PDC-sensor-domain-containing-protein
MEKFEHVLSEMKNTLCEELKSFLERFENYEDERFQENLFVSFPFIELFYILDGNGIQIIDNVINPLYIKKVSRFGKGADRSSRPYYLEVVKEKKCIVTKPYKSVSSSEISATVAIPIIDENGSIKKILCFDIDLIALLQSDKHFYTKDKFEKITKIFYTVFSIFLGLISVKLVLWGSLNLFIIDPNPEHIFKSVILVTLAIAIFDLSKTIFEEEVLLYKDPRRHSEIRKTLTRFLASIIIAISIEALMLVFKFTISDPSKLIYSMGIIASVGFVLISLGIYVFLGTKSEISVKKFEREFK
>NC_012438.1|WP_012674250.1|1081864_1082239_+|HEPN-domain-containing-protein
MKTVAKEKALERLEIAHWQIEAGKINTLGSTLYFALFNYMQSILGEAPEGRWKHIGILKFFLKICTEKNYLDKLTLRKISKIYEDLYQYRLKADYLDEDLTEKEKRELIFIYEVVKEVINNGKN
>NC_012438.1|WP_012674266.1|1082225_1082498_+|hypothetical-protein
MAKIKEIQLITKLLNELIKIKGIENIELINIPDDVEADVGLRIRLRNNYDWIEVNHKISDIIWALFEKTGEYITVYREFDNSVDKIVESF
>NC_012438.1|WP_012674331.1|1083682_1085173_+|DNA-polymerase-III-subunit-gamma/tau
MVYEAFSRKYRPKSFKEVIGQDFVVKTLKNAVKLNRVSHAYIFAGPRGVGKTTIARILAKTLNCLNPQDFEPCNKCENCLEIEKGSFPDMYEIDAASNRGIDDIRTIRDNVNYQPIKGKYKIYIIDEAHMLTKEAFNALLKTLEEPPPKNIFILATTELYKIPETIKSRCQVFLFKPPTKSQIKAYLLRILENEKIPYEDQAVDLLSQELEGGMRDSASLLDQAVTYSEGRLTVKSVEEILGIVPLNYIKKALNYIKNQEVQPFIKLLDELEDLGYDLNIFWKELLTNLQKSLINIAMENPDEIFSQEDLKSLIYIKDMFNKAFIEARTFINPKDIYQVYILKLNYLDSIKSISQLLSGNIQLQKQTETKEEKATTPQTTEEKPKERAEEKKELPVEKIIAQIIKNEKVISVVIKEAEITQDENNIYIKLKNKEQEEILNAHIDLLKKYFPDKNIHTSAPQSKEKKKEKKRDEVVDKVLELFPGSKILTYKEKEEK
>NC_012438.1|WP_012673590.1|1085173_1085506_+|YbaB/EbfC-family-nucleoid-associated-protein
MFNFGNLAELMKQFQMIKENVEKAKEELKKENVVVEVGGGMVKVVSNGLGEIVDIEIDKSLLNEQEYQVLKDLLISAVNEASDRSKELMTQKLTEASGLPSSFSKFGGLF
>NC_012438.1|WP_012674514.1|1085502_1086102_+|recombination-protein-RecR
MNYIPDILKKVIEDISNLPGYGEKSAQRLAINLLKLPRGEAVDLIKHIAQMLDKIHPCKECGIYTDQEICPICSSEERDKTHICVVEESFDAYAIEKTGKFKGVYHVLGGRLSPLEGIGPEKLNIKTLIERIKKYQVKEVIIATNPTVEGEATGNYIYNLLKKYPLNITRLAYGLPFGSVLENADDFTLSKALEYRVKI
>NC_012438.1|WP_012674521.1|1086130_1086763_+|tetratricopeptide-repeat-protein
MSKEKLPLEKDVDIELEYKIYHLWDKVKKYLKIILAFVVILLIGSLGYYLYTKKKQEENEKASVYVSKIANLLSEDKKEEARKLIDEFEKKYKDTNFYKVILSYKIMMAKDEGKEDEKLANALKEKLNTQILEGVKEYTAYLKLKQNNTNQAKEILKSIDKDKYNYISAQATLGLIYKKEGNYQEAEKIFNEIKEKKDYRYFSILARENL
>NC_012438.1|WP_012673685.1|1086772_1087480_+|phosphoribosylaminoimidazolesuccinocarboxamide-synthase
MEKLYEGKAKIVYKAQDPDKVVIYFKDEATAFNAQKKDVIEGKGVINNKISSIFFQILEKHGIPTHFVKQLSDREMLAYKTQIIPVEVVVRNLATGSIVKRLGIPEKTPFNPPLIEFYLKNDQLGDPIICYEHILALNLANDQEIKTIKELAFKVNQILKDILIKHDIILVDFKLEFGKKEDGNIVVADEISPDTCRFWDAKTGERMDKDRFRLNLGDLAKFYEEVLRRIENEKD
>NC_012438.1|WP_012675008.1|1087466_1088357_+|UTP--glucose-1-phosphate-uridylyltransferase-GalU
MKKIRKAVIPVAGFGTRFLPATKSTPKEMMPLIDKPIIHYIVEEAVNSGIETIIFVTGRHKRAIEDYFDYYPELEQVLKKAGKEKEIEKLRQISNMAEFVYIRQKEQLGLGHAVLTAERLVGDEPFVVLLGDEIIKNDENPGIKQLIDIYYQFGKSVIGTMEVQKEDVSKYGIVAGKEVINGIKLVETLVEKPAIEEAPSTSAIIGRYVLTPNIFESLKQTTIGKGGELQLTDGLINLRKKEVIYAKDIEGIRHDTGNKIGYLEAILDYALEREDVKEEFIKMLKEKCKEVEQGQS
>NC_012438.1|WP_012673635.1|1088337_1089138_+|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MNKVKAKKQFGQHFLKSQDVVKKIVDEVDIKEDDTILEIGPGTGILTEEILKRNPNKLYSVEIDKSLYPLLEEKFKEYKNFELVKSDIFDVNIKEIAASKKLKVVGNLPYNVASLIMINCVFNMEVVDFCVFMIQKEVAEKLIAKPKTKSYTFLSVFMQTFFDIKYIMSVPARFFSPPPKVTSAVVKLTPYNRFGIKDIKKYKNFVSHLFTDRRKMIRSKLDQSILEKANIKPTLRAEELNVEDFVRLFEVVKNDDRKFGDADSHS
>NC_012438.1|WP_012674309.1|1089097_1089379_+|DUF503-domain-containing-protein
MMIGSLVMQIHIHDAGSLKEKRMVIRSIKEKLRSKFNVSVSEVDNQDLWQLATVAVVTVAPDKNQVESILQNVVNFIYSNFPELHIDVSKEIF

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Crispr_ID: NC_012438_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_11

1082776-1083474

TypeV

Consensus_repeat	Method
GTTTTTAGAGTGCCTATGA-GGAATTGAAAC	PILER-CR
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	CRT

10 spacers

cas14k

The CRISPR arrays of NC_012438_11

>merge|NC_012438|11|1082776-1083474|PILER-CR,CRT
GTTTTTAGAGTGCCTATGAGGAATTGAAACTGGTTGTTTTATGGTTGCGTTTATTATGCTGTCTATTAGTTTTTAGAGTGCCTATGAGGAATTGAAACTTTGGTAGACAGCATAGTAGCTCTTACCCGAACCAGGTTTTTAGAGTGCCTATGAGGAATTGAAACCTTCTGTTCCTTCATCATCATCAAAAATCAGAGTGTAGGTTTTTAGAGTGCCTATGAGGAATTGAAACGGACCTTCACCTTCAAATTTGATTTTCACGCCTGAGTTTTTAGAGTGCCTATGAGGAATTGAAACATTATAGTTAATAAAAAATATATAGGTACCATAAAAAAGTTTTTAGAGTGCCTATGAGGAATTGAAACACATAAAGAAAGGTAATATTGTAGATAAAACTTGTGGGTTTTTAGAGTGCCTATGAGGAATTGAAACAACTGCATTATTTGAATATTCAAATATTCGCATAAAGGTTTTTAGAGTGCCTATGAGGAATTGAAACTGAATGATGTGTTTATATGAATTATGAATGATGTGTGTTTTTAGAGTGCCTATGAGGAATTGAAACTTGTTTGATATTCATTATATGTATTGTTATTGATGTTGTTTTTAGAGTGCCTATGAGGAATTGAAACTTGTTTGATATTCATTATATGTATTGTTATTGATGTTGTTTTTAGAGTGCCTATGAGGAATTGAAAC

>NC_012438|11|12|1082776-1083474|PILER-CR
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TGGTTGTTTTATGGTTGCGTTTATTATGCTGTCTATTA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTTGGTAGACAGCATAGTAGCTCTTACCCGAACCAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	CTTCTGTTCCTTCATCATCATCAAAAATCAGAGTGTAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	GGACCTTCACCTTCAAATTTGATTTTCACGCCTGA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	ATTATAGTTAATAAAAAATATATAGGTACCATAAAAAA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	ACATAAAGAAAGGTAATATTGTAGATAAAACTTGTGG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	AACTGCATTATTTGAATATTCAAATATTCGCATAAAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TGAATGATGTGTTTATATGAATTATGAATGATGTGT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTTGATATTCATTATATGTATTGTTATTGATGTT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTTGATATTCATTATATGTATTGTTATTGATGTT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC

>NC_012438|11|11|1082776-1083474|CRT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TGGTTGTTTTATGGTTGCGTTTATTATGCTGTCTATTA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTTGGTAGACAGCATAGTAGCTCTTACCCGAACCAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	CTTCTGTTCCTTCATCATCATCAAAAATCAGAGTGTAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	GGACCTTCACCTTCAAATTTGATTTTCACGCCTGA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	ATTATAGTTAATAAAAAATATATAGGTACCATAAAAAA
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	ACATAAAGAAAGGTAATATTGTAGATAAAACTTGTGG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	AACTGCATTATTTGAATATTCAAATATTCGCATAAAG
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TGAATGATGTGTTTATATGAATTATGAATGATGTGT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTTGATATTCATTATATGTATTGTTATTGATGTT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC	TTGTTTGATATTCATTATATGTATTGTTATTGATGTT
GTTTTTAGAGTGCCTATGAGGAATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	unknown	unknown	gnl\|CDD\|235591
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|234616
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	cas14k	-	gnl\|CDD\|223747
NC_012438.1\|WP_012673844.1\|1089682_1090504_-\|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase	unknown	unknown	gnl\|CDD\|381175
NC_012438.1\|WP_012674266.1\|1082225_1082498_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NC_012438.1\|WP_012673832.1\|1089391_1089694_+\|30S-ribosome-binding-factor-RbfA	unknown	unknown	gnl\|CDD\|376719
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	unknown	unknown	gnl\|CDD\|224131
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	unknown	unknown	gnl\|CDD\|181800
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	unknown	unknown	gnl\|CDD\|173089
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	unknown	unknown	gnl\|CDD\|236959
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	unknown	unknown	gnl\|CDD\|368440
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	unknown	unknown	gnl\|CDD\|223255
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	unknown	unknown	gnl\|CDD\|377364
NC_012438.1\|WP_012674250.1\|1081864_1082239_+\|HEPN-domain-containing-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|379646
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	unknown	unknown	gnl\|CDD\|236450
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	unknown	unknown	gnl\|CDD\|237867

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	gnl\|CDD\|235591	PRK05755, PRK05755, DNA polymerase I; Provisional.	3.03589e-137
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.36713e-21
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	gnl\|CDD\|234616	PRK00076, recR, recombination protein RecR; Reviewed.	5.51428e-95
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.78169e-15
NC_012438.1\|WP_012673844.1\|1089682_1090504_-\|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.	2.47757e-119
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	4.65763e-106
NC_012438.1\|WP_012673832.1\|1089391_1089694_+\|30S-ribosome-binding-factor-RbfA	gnl\|CDD\|376719	pfam02033, RBFA, Ribosome-binding factor A.	5.0257e-22
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	gnl\|CDD\|224131	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane].	1.76006e-147
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	gnl\|CDD\|181800	PRK09362, PRK09362, phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed.	8.20803e-143
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	gnl\|CDD\|173089	PRK14626, PRK14626, YbaB/EbfC family nucleoid-associated protein.	5.27139e-58
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	gnl\|CDD\|236959	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional.	6.56995e-57
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.82382e-11
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	gnl\|CDD\|368440	pfam05433, Rick_17kDa_Anti, Glycine zipper 2TM domain. This family includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs. This family includes several Rickettsia genus specific 17 kDa surface antigen proteins.	0.000759716
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	gnl\|CDD\|223255	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair].	2.70256e-47
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	gnl\|CDD\|377364	pfam04456, DUF503, Protein of unknown function (DUF503). Family of hypothetical bacterial proteins.	1.93944e-35
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	gnl\|CDD\|379646	pfam14559, TPR_19, Tetratricopeptide repeat.	0.00025659
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	gnl\|CDD\|236450	PRK09283, PRK09283, porphobilinogen synthase.	0
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	gnl\|CDD\|237867	PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional.	0

>NC_012438.1|WP_012674266.1|1082225_1082498_+|hypothetical-protein
MAKIKEIQLITKLLNELIKIKGIENIELINIPDDVEADVGLRIRLRNNYDWIEVNHKISDIIWALFEKTGEYITVYREFDNSVDKIVESF
>NC_012438.1|WP_012674250.1|1081864_1082239_+|HEPN-domain-containing-protein
MKTVAKEKALERLEIAHWQIEAGKINTLGSTLYFALFNYMQSILGEAPEGRWKHIGILKFFLKICTEKNYLDKLTLRKISKIYEDLYQYRLKADYLDEDLTEKEKRELIFIYEVVKEVINNGKN
>NC_012438.1|WP_041675864.1|1080083_1080794_-|16S-rRNA-(uracil(1498)-N(3))-methyltransferase
MSYPLFIGKFEGDFLVLTDDEYHHAVKVRRLKEGDKVEVNDLQGNIYLGEILKIEKNKALIKPIQKQDIKIPDYKITLYQCMPNQLSKIDDIIEPISQLGVDRFVPVLSKNSAVKQSDVEKKIQKWEKIALNSIKQCRRLYPVSIDKPVKLSNINSYDDLKVVFYEKEYERKTKDLIGKTFQNCSIVIGNEGGFKEDEINLLVDKGFLPLSLGNYILKMETAIIVGICQIKIILER
>NC_012438.1|WP_012673894.1|1079649_1080078_-|glycine-zipper-2TM-domain-containing-protein
MKKVVALTLAGSILLASCAEYYRPSQSTYEGGLIGAITGATAGAILTQNNKWKGGVIGGVIGAIAGATIAEISKRGAVEAVQTGQPVRYQTEDGRAVYEAKPLGYDAKTRCHKVQEKIYENGKLVKDQIKEVCESEKVEQKY
>NC_012438.1|WP_012674839.1|1078660_1079638_-|porphobilinogen-synthase
MGFPINRYRRLRKNENIRRLVRETTLSVDDLIYPIFIEDGQNIKKEIPSMPGIYRWSLDRINEELDEVVSLGIPAVLLFGIPSYKDEVGSDTWNDEGIIQRAIKHIKKNYPNLYVITDVCFCEYTSHGHCGVLHNHDVDNDLTLENTRKQVISHAKAGADMVAPSGMMDGVVKTIREALDSAGFYDIPIMAYSAKYASSYYGPFREAADSTPAFGDRRTYQMDPANRLEALREVALDIEEGADIVMVKPALAYLDIIRDIKNNFNIPLAAYNVSGEYSMIKAAGKLGWIDEKKVMMETLTSIKRAGSDIIITYFAKEVARILKNG
>NC_012438.1|WP_012674129.1|1077771_1078668_-|5'-3'-exonuclease
MDKKLLLVDGSSYLYRAYYALPPLSAPDGTPTGAIYGFVRMLLKLISTFNTPYIAVVFDRPEKTVRHKIYKEYKATRKETPNDLQVQIPKIKEIIKLLGIKILEIPGYEADDIIATLSKKAENRSFEVIIVTPDKDMNQLIDQHIKIFNPMKEEIVDTQKVIEKYGVSPQQFIDYLVLVGDSIDNIPGIKGVGPKTAASLLQEFGSIDRILENKDKLKGKLKESFAAVSKEDIQLVRSLVKLHQDIDIPVEIESLKKDKPDLIKLKEIFEKLGFKSLIKEIEKPNLEKKQTIVQKSLF
>NC_012438.1|WP_012674728.1|1077427_1077772_-|endonuclease-III
MANFTEKELIDRLKKHFPQPWIDLNFENPYQLTVATILAAQSTDKKVNQITPIFFKKFPTPQDVAKAPLEEIEEIIKSINYYKRKAKLIKECCKKVVEEFGGKIPDNMEEYPFA
>NC_012438.1|WP_187145710.1|1076125_1077079_+|IS481-family-transposase
MTTLFPKKLSNKIKDIPLTKEAKKRLKWIQHYQDTKNISKTCRYFGISRTTFYKWFERYKKDGLEGLLDRPKTPKNTRKPTIRNQYREQIIKVRKQNPTWSKEKISAYLQEEKNIKVSPSTVYKVLKEEGLIERTKSIKIQNKRKKSIKKKRTKRGLQAQAPGDVVQIDVKHLNIAGATYYQFTAIDKYSRFCFARVYESKNSKKTKEFYIELNEYFEFEIKRVQTDNGSEFLGEFNKYLTDIGVEHYFSYPRSPKTNGVVERLIRTIEEELWLIEGLDYTLEEMNKKLRKYVRKYNFIRPHHSLGYKRPADIVYGV
>NC_012438.1|WP_012673626.1|1075042_1075891_+|IS982-family-transposase
MTFRDYIINVYILTDEILKLIKHKHKTNKPKFSDVELITLIIFSMSYRKGDYKITLKEFKENYNDLFPYVPQLPAIVKRAKKLYKLAQVISIILTNLFSEKITTVYIADTKPIPVCKNQRMKRNKKVSGKLYKGNNAAREWFGFKIRLIVDYYKRPIGYEIIPASKHDINFLKEVKEDSVLIDILNKGTIIADKAFNSKDLKEEFKSLGIELEAIRKKGKVHHKQKDKQEFLKRVRKRIETVFSKLYYMGIEDIRAVSLEGFKAKINFFILALSFATCLGLF
>NC_012438.1|WP_012674743.1|1073362_1074886_-|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MKPQEKIKRVFTIRVGGKERKRKVRTLLLDLAHFRNILTILITKYYTLYKEHLLNQSILYGLVAKNYTGKYKEEFEKVLKNIESNPELADLLIKLKNQKEKVDNPHYIQYIIRQTIKDFKSFFKSLESFKTNPEKFKEIPRPPKAKKLKYLMNFSVEGNVNTFKQEGDKIIIRLKNNKYLKVKLPKDFPYKISSLRIKLFGDDLYVDAVYEYPLKVEQPEGEYKAGIDIGLNELLSVVSENPELKSFIVSGKEIKAFNQWFNKEMSKLRAEIDNLKNSVKKGFIENQVATKKIYELELKMKSLSSHRKRWLDNNFHKIARKLVDLLHETGHKTIYIGKNAIESKNGIDLGKKTNQEFVSIPFRRLIKLIEYKAYEYGMEVIEVDESYTSKTSPLANIFEVKETKNKEVCQGKRDGDIFKDKVLNKVFHADLVGAVNIIRVGAKLLRLRFYENLKTFFIKLCNPVKLKLIDLFYKVSPESLWIGSSRWGASFPAGWMEKSGYLNTFGT
>NC_012438.1|WP_012674331.1|1083682_1085173_+|DNA-polymerase-III-subunit-gamma/tau
MVYEAFSRKYRPKSFKEVIGQDFVVKTLKNAVKLNRVSHAYIFAGPRGVGKTTIARILAKTLNCLNPQDFEPCNKCENCLEIEKGSFPDMYEIDAASNRGIDDIRTIRDNVNYQPIKGKYKIYIIDEAHMLTKEAFNALLKTLEEPPPKNIFILATTELYKIPETIKSRCQVFLFKPPTKSQIKAYLLRILENEKIPYEDQAVDLLSQELEGGMRDSASLLDQAVTYSEGRLTVKSVEEILGIVPLNYIKKALNYIKNQEVQPFIKLLDELEDLGYDLNIFWKELLTNLQKSLINIAMENPDEIFSQEDLKSLIYIKDMFNKAFIEARTFINPKDIYQVYILKLNYLDSIKSISQLLSGNIQLQKQTETKEEKATTPQTTEEKPKERAEEKKELPVEKIIAQIIKNEKVISVVIKEAEITQDENNIYIKLKNKEQEEILNAHIDLLKKYFPDKNIHTSAPQSKEKKKEKKRDEVVDKVLELFPGSKILTYKEKEEK
>NC_012438.1|WP_012673590.1|1085173_1085506_+|YbaB/EbfC-family-nucleoid-associated-protein
MFNFGNLAELMKQFQMIKENVEKAKEELKKENVVVEVGGGMVKVVSNGLGEIVDIEIDKSLLNEQEYQVLKDLLISAVNEASDRSKELMTQKLTEASGLPSSFSKFGGLF
>NC_012438.1|WP_012674514.1|1085502_1086102_+|recombination-protein-RecR
MNYIPDILKKVIEDISNLPGYGEKSAQRLAINLLKLPRGEAVDLIKHIAQMLDKIHPCKECGIYTDQEICPICSSEERDKTHICVVEESFDAYAIEKTGKFKGVYHVLGGRLSPLEGIGPEKLNIKTLIERIKKYQVKEVIIATNPTVEGEATGNYIYNLLKKYPLNITRLAYGLPFGSVLENADDFTLSKALEYRVKI
>NC_012438.1|WP_012674521.1|1086130_1086763_+|tetratricopeptide-repeat-protein
MSKEKLPLEKDVDIELEYKIYHLWDKVKKYLKIILAFVVILLIGSLGYYLYTKKKQEENEKASVYVSKIANLLSEDKKEEARKLIDEFEKKYKDTNFYKVILSYKIMMAKDEGKEDEKLANALKEKLNTQILEGVKEYTAYLKLKQNNTNQAKEILKSIDKDKYNYISAQATLGLIYKKEGNYQEAEKIFNEIKEKKDYRYFSILARENL
>NC_012438.1|WP_012673685.1|1086772_1087480_+|phosphoribosylaminoimidazolesuccinocarboxamide-synthase
MEKLYEGKAKIVYKAQDPDKVVIYFKDEATAFNAQKKDVIEGKGVINNKISSIFFQILEKHGIPTHFVKQLSDREMLAYKTQIIPVEVVVRNLATGSIVKRLGIPEKTPFNPPLIEFYLKNDQLGDPIICYEHILALNLANDQEIKTIKELAFKVNQILKDILIKHDIILVDFKLEFGKKEDGNIVVADEISPDTCRFWDAKTGERMDKDRFRLNLGDLAKFYEEVLRRIENEKD
>NC_012438.1|WP_012675008.1|1087466_1088357_+|UTP--glucose-1-phosphate-uridylyltransferase-GalU
MKKIRKAVIPVAGFGTRFLPATKSTPKEMMPLIDKPIIHYIVEEAVNSGIETIIFVTGRHKRAIEDYFDYYPELEQVLKKAGKEKEIEKLRQISNMAEFVYIRQKEQLGLGHAVLTAERLVGDEPFVVLLGDEIIKNDENPGIKQLIDIYYQFGKSVIGTMEVQKEDVSKYGIVAGKEVINGIKLVETLVEKPAIEEAPSTSAIIGRYVLTPNIFESLKQTTIGKGGELQLTDGLINLRKKEVIYAKDIEGIRHDTGNKIGYLEAILDYALEREDVKEEFIKMLKEKCKEVEQGQS
>NC_012438.1|WP_012673635.1|1088337_1089138_+|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MNKVKAKKQFGQHFLKSQDVVKKIVDEVDIKEDDTILEIGPGTGILTEEILKRNPNKLYSVEIDKSLYPLLEEKFKEYKNFELVKSDIFDVNIKEIAASKKLKVVGNLPYNVASLIMINCVFNMEVVDFCVFMIQKEVAEKLIAKPKTKSYTFLSVFMQTFFDIKYIMSVPARFFSPPPKVTSAVVKLTPYNRFGIKDIKKYKNFVSHLFTDRRKMIRSKLDQSILEKANIKPTLRAEELNVEDFVRLFEVVKNDDRKFGDADSHS
>NC_012438.1|WP_012674309.1|1089097_1089379_+|DUF503-domain-containing-protein
MMIGSLVMQIHIHDAGSLKEKRMVIRSIKEKLRSKFNVSVSEVDNQDLWQLATVAVVTVAPDKNQVESILQNVVNFIYSNFPELHIDVSKEIF
>NC_012438.1|WP_012673832.1|1089391_1089694_+|30S-ribosome-binding-factor-RbfA
MKEKSHRMEKINSLLKKEISDIIFHEYEIGQENFITISVIDTKADLSQADIYVSALKDEDQIIDALNKESGHIRYILGKKIRMKKTPKLVFKKDIFKLQI
>NC_012438.1|WP_012673844.1|1089682_1090504_-|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
MKKLYVIATPIGNLKDITLRALEVLNSVDVIAAEDTRHVQKLLKHYGIFGKKLVSYHNYNEEERAEKLIEILKDKDVALVSDAGTPCISDPGYRIVKKAREKGIEVIPIPGPFAAAVALSASGLPSDKFLFVGFLPNKESEREEDLKYYIDLGFTFILYESPKRVLKTLKTLEKLNPMADVVVAKELTKIHESFFIGKPEDIINLLEENPDKLKGEFVILVHPNQEKVIDIDSILTEAKQLKNQGMKTKEIASLLSKKYKVSKNEIYKKILNL

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Crispr_ID: NC_012438_12

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_12

1083512-1083605

TypeV

Consensus_repeat	Method
GTTTTCTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder

1 spacers

cas14k

The CRISPR arrays of NC_012438_12

>merge|NC_012438|12|1083512-1083605|CRISPRCasFinder
TTTTTCTCCCGACTATGAAAGAATTGAAGAATTCTACCCTCGATTTCATCAATTACTGCTACTTCGTTTTCTCCCGACTATGAGGGAATTTGTC

>NC_012438|12|10|1083512-1083605|CRISPRCasFinder
TTTTTCTCCCGACTATGAAAGAATTGAAG	AATTCTACCCTCGATTTCATCAATTACTGCTACTTC
GTTTTCTCCCGACTATGAGGGAATTTGTC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	unknown	unknown	gnl\|CDD\|235591
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|234616
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	cas14k	-	gnl\|CDD\|223747
NC_012438.1\|WP_012673844.1\|1089682_1090504_-\|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase	unknown	unknown	gnl\|CDD\|381175
NC_012438.1\|WP_012674266.1\|1082225_1082498_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NC_012438.1\|WP_012673832.1\|1089391_1089694_+\|30S-ribosome-binding-factor-RbfA	unknown	unknown	gnl\|CDD\|376719
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	unknown	unknown	gnl\|CDD\|224131
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	unknown	unknown	gnl\|CDD\|181800
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	unknown	unknown	gnl\|CDD\|173089
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	unknown	unknown	gnl\|CDD\|236959
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	unknown	unknown	gnl\|CDD\|372648
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	unknown	unknown	gnl\|CDD\|368440
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	unknown	unknown	gnl\|CDD\|223255
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	unknown	unknown	gnl\|CDD\|377364
NC_012438.1\|WP_012674250.1\|1081864_1082239_+\|HEPN-domain-containing-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|379646
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	unknown	unknown	gnl\|CDD\|236450
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	unknown	unknown	gnl\|CDD\|237867

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012674129.1\|1077771_1078668_-\|5'-3'-exonuclease	gnl\|CDD\|235591	PRK05755, PRK05755, DNA polymerase I; Provisional.	3.03589e-137
NC_012438.1\|WP_187145710.1\|1076125_1077079_+\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.36713e-21
NC_012438.1\|WP_012674514.1\|1085502_1086102_+\|recombination-protein-RecR	gnl\|CDD\|234616	PRK00076, recR, recombination protein RecR; Reviewed.	5.51428e-95
NC_012438.1\|WP_012674743.1\|1073362_1074886_-\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.78169e-15
NC_012438.1\|WP_012673844.1\|1089682_1090504_-\|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.	2.47757e-119
NC_012438.1\|WP_012673635.1\|1088337_1089138_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	4.65763e-106
NC_012438.1\|WP_012673832.1\|1089391_1089694_+\|30S-ribosome-binding-factor-RbfA	gnl\|CDD\|376719	pfam02033, RBFA, Ribosome-binding factor A.	5.0257e-22
NC_012438.1\|WP_012675008.1\|1087466_1088357_+\|UTP--glucose-1-phosphate-uridylyltransferase-GalU	gnl\|CDD\|224131	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane].	1.76006e-147
NC_012438.1\|WP_012673685.1\|1086772_1087480_+\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	gnl\|CDD\|181800	PRK09362, PRK09362, phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed.	8.20803e-143
NC_012438.1\|WP_012673590.1\|1085173_1085506_+\|YbaB/EbfC-family-nucleoid-associated-protein	gnl\|CDD\|173089	PRK14626, PRK14626, YbaB/EbfC family nucleoid-associated protein.	5.27139e-58
NC_012438.1\|WP_041675864.1\|1080083_1080794_-\|16S-rRNA-(uracil(1498)-N(3))-methyltransferase	gnl\|CDD\|236959	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional.	6.56995e-57
NC_012438.1\|WP_012673626.1\|1075042_1075891_+\|IS982-family-transposase	gnl\|CDD\|372648	pfam13612, DDE_Tnp_1_3, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contains three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	7.82382e-11
NC_012438.1\|WP_012673894.1\|1079649_1080078_-\|glycine-zipper-2TM-domain-containing-protein	gnl\|CDD\|368440	pfam05433, Rick_17kDa_Anti, Glycine zipper 2TM domain. This family includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs. This family includes several Rickettsia genus specific 17 kDa surface antigen proteins.	0.000759716
NC_012438.1\|WP_012674728.1\|1077427_1077772_-\|endonuclease-III	gnl\|CDD\|223255	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair].	2.70256e-47
NC_012438.1\|WP_012674309.1\|1089097_1089379_+\|DUF503-domain-containing-protein	gnl\|CDD\|377364	pfam04456, DUF503, Protein of unknown function (DUF503). Family of hypothetical bacterial proteins.	1.93944e-35
NC_012438.1\|WP_012674521.1\|1086130_1086763_+\|tetratricopeptide-repeat-protein	gnl\|CDD\|379646	pfam14559, TPR_19, Tetratricopeptide repeat.	0.00025659
NC_012438.1\|WP_012674839.1\|1078660_1079638_-\|porphobilinogen-synthase	gnl\|CDD\|236450	PRK09283, PRK09283, porphobilinogen synthase.	0
NC_012438.1\|WP_012674331.1\|1083682_1085173_+\|DNA-polymerase-III-subunit-gamma/tau	gnl\|CDD\|237867	PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional.	0

>NC_012438.1|WP_012674266.1|1082225_1082498_+|hypothetical-protein
MAKIKEIQLITKLLNELIKIKGIENIELINIPDDVEADVGLRIRLRNNYDWIEVNHKISDIIWALFEKTGEYITVYREFDNSVDKIVESF
>NC_012438.1|WP_012674250.1|1081864_1082239_+|HEPN-domain-containing-protein
MKTVAKEKALERLEIAHWQIEAGKINTLGSTLYFALFNYMQSILGEAPEGRWKHIGILKFFLKICTEKNYLDKLTLRKISKIYEDLYQYRLKADYLDEDLTEKEKRELIFIYEVVKEVINNGKN
>NC_012438.1|WP_041675864.1|1080083_1080794_-|16S-rRNA-(uracil(1498)-N(3))-methyltransferase
MSYPLFIGKFEGDFLVLTDDEYHHAVKVRRLKEGDKVEVNDLQGNIYLGEILKIEKNKALIKPIQKQDIKIPDYKITLYQCMPNQLSKIDDIIEPISQLGVDRFVPVLSKNSAVKQSDVEKKIQKWEKIALNSIKQCRRLYPVSIDKPVKLSNINSYDDLKVVFYEKEYERKTKDLIGKTFQNCSIVIGNEGGFKEDEINLLVDKGFLPLSLGNYILKMETAIIVGICQIKIILER
>NC_012438.1|WP_012673894.1|1079649_1080078_-|glycine-zipper-2TM-domain-containing-protein
MKKVVALTLAGSILLASCAEYYRPSQSTYEGGLIGAITGATAGAILTQNNKWKGGVIGGVIGAIAGATIAEISKRGAVEAVQTGQPVRYQTEDGRAVYEAKPLGYDAKTRCHKVQEKIYENGKLVKDQIKEVCESEKVEQKY
>NC_012438.1|WP_012674839.1|1078660_1079638_-|porphobilinogen-synthase
MGFPINRYRRLRKNENIRRLVRETTLSVDDLIYPIFIEDGQNIKKEIPSMPGIYRWSLDRINEELDEVVSLGIPAVLLFGIPSYKDEVGSDTWNDEGIIQRAIKHIKKNYPNLYVITDVCFCEYTSHGHCGVLHNHDVDNDLTLENTRKQVISHAKAGADMVAPSGMMDGVVKTIREALDSAGFYDIPIMAYSAKYASSYYGPFREAADSTPAFGDRRTYQMDPANRLEALREVALDIEEGADIVMVKPALAYLDIIRDIKNNFNIPLAAYNVSGEYSMIKAAGKLGWIDEKKVMMETLTSIKRAGSDIIITYFAKEVARILKNG
>NC_012438.1|WP_012674129.1|1077771_1078668_-|5'-3'-exonuclease
MDKKLLLVDGSSYLYRAYYALPPLSAPDGTPTGAIYGFVRMLLKLISTFNTPYIAVVFDRPEKTVRHKIYKEYKATRKETPNDLQVQIPKIKEIIKLLGIKILEIPGYEADDIIATLSKKAENRSFEVIIVTPDKDMNQLIDQHIKIFNPMKEEIVDTQKVIEKYGVSPQQFIDYLVLVGDSIDNIPGIKGVGPKTAASLLQEFGSIDRILENKDKLKGKLKESFAAVSKEDIQLVRSLVKLHQDIDIPVEIESLKKDKPDLIKLKEIFEKLGFKSLIKEIEKPNLEKKQTIVQKSLF
>NC_012438.1|WP_012674728.1|1077427_1077772_-|endonuclease-III
MANFTEKELIDRLKKHFPQPWIDLNFENPYQLTVATILAAQSTDKKVNQITPIFFKKFPTPQDVAKAPLEEIEEIIKSINYYKRKAKLIKECCKKVVEEFGGKIPDNMEEYPFA
>NC_012438.1|WP_187145710.1|1076125_1077079_+|IS481-family-transposase
MTTLFPKKLSNKIKDIPLTKEAKKRLKWIQHYQDTKNISKTCRYFGISRTTFYKWFERYKKDGLEGLLDRPKTPKNTRKPTIRNQYREQIIKVRKQNPTWSKEKISAYLQEEKNIKVSPSTVYKVLKEEGLIERTKSIKIQNKRKKSIKKKRTKRGLQAQAPGDVVQIDVKHLNIAGATYYQFTAIDKYSRFCFARVYESKNSKKTKEFYIELNEYFEFEIKRVQTDNGSEFLGEFNKYLTDIGVEHYFSYPRSPKTNGVVERLIRTIEEELWLIEGLDYTLEEMNKKLRKYVRKYNFIRPHHSLGYKRPADIVYGV
>NC_012438.1|WP_012673626.1|1075042_1075891_+|IS982-family-transposase
MTFRDYIINVYILTDEILKLIKHKHKTNKPKFSDVELITLIIFSMSYRKGDYKITLKEFKENYNDLFPYVPQLPAIVKRAKKLYKLAQVISIILTNLFSEKITTVYIADTKPIPVCKNQRMKRNKKVSGKLYKGNNAAREWFGFKIRLIVDYYKRPIGYEIIPASKHDINFLKEVKEDSVLIDILNKGTIIADKAFNSKDLKEEFKSLGIELEAIRKKGKVHHKQKDKQEFLKRVRKRIETVFSKLYYMGIEDIRAVSLEGFKAKINFFILALSFATCLGLF
>NC_012438.1|WP_012674743.1|1073362_1074886_-|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MKPQEKIKRVFTIRVGGKERKRKVRTLLLDLAHFRNILTILITKYYTLYKEHLLNQSILYGLVAKNYTGKYKEEFEKVLKNIESNPELADLLIKLKNQKEKVDNPHYIQYIIRQTIKDFKSFFKSLESFKTNPEKFKEIPRPPKAKKLKYLMNFSVEGNVNTFKQEGDKIIIRLKNNKYLKVKLPKDFPYKISSLRIKLFGDDLYVDAVYEYPLKVEQPEGEYKAGIDIGLNELLSVVSENPELKSFIVSGKEIKAFNQWFNKEMSKLRAEIDNLKNSVKKGFIENQVATKKIYELELKMKSLSSHRKRWLDNNFHKIARKLVDLLHETGHKTIYIGKNAIESKNGIDLGKKTNQEFVSIPFRRLIKLIEYKAYEYGMEVIEVDESYTSKTSPLANIFEVKETKNKEVCQGKRDGDIFKDKVLNKVFHADLVGAVNIIRVGAKLLRLRFYENLKTFFIKLCNPVKLKLIDLFYKVSPESLWIGSSRWGASFPAGWMEKSGYLNTFGT
>NC_012438.1|WP_012674331.1|1083682_1085173_+|DNA-polymerase-III-subunit-gamma/tau
MVYEAFSRKYRPKSFKEVIGQDFVVKTLKNAVKLNRVSHAYIFAGPRGVGKTTIARILAKTLNCLNPQDFEPCNKCENCLEIEKGSFPDMYEIDAASNRGIDDIRTIRDNVNYQPIKGKYKIYIIDEAHMLTKEAFNALLKTLEEPPPKNIFILATTELYKIPETIKSRCQVFLFKPPTKSQIKAYLLRILENEKIPYEDQAVDLLSQELEGGMRDSASLLDQAVTYSEGRLTVKSVEEILGIVPLNYIKKALNYIKNQEVQPFIKLLDELEDLGYDLNIFWKELLTNLQKSLINIAMENPDEIFSQEDLKSLIYIKDMFNKAFIEARTFINPKDIYQVYILKLNYLDSIKSISQLLSGNIQLQKQTETKEEKATTPQTTEEKPKERAEEKKELPVEKIIAQIIKNEKVISVVIKEAEITQDENNIYIKLKNKEQEEILNAHIDLLKKYFPDKNIHTSAPQSKEKKKEKKRDEVVDKVLELFPGSKILTYKEKEEK
>NC_012438.1|WP_012673590.1|1085173_1085506_+|YbaB/EbfC-family-nucleoid-associated-protein
MFNFGNLAELMKQFQMIKENVEKAKEELKKENVVVEVGGGMVKVVSNGLGEIVDIEIDKSLLNEQEYQVLKDLLISAVNEASDRSKELMTQKLTEASGLPSSFSKFGGLF
>NC_012438.1|WP_012674514.1|1085502_1086102_+|recombination-protein-RecR
MNYIPDILKKVIEDISNLPGYGEKSAQRLAINLLKLPRGEAVDLIKHIAQMLDKIHPCKECGIYTDQEICPICSSEERDKTHICVVEESFDAYAIEKTGKFKGVYHVLGGRLSPLEGIGPEKLNIKTLIERIKKYQVKEVIIATNPTVEGEATGNYIYNLLKKYPLNITRLAYGLPFGSVLENADDFTLSKALEYRVKI
>NC_012438.1|WP_012674521.1|1086130_1086763_+|tetratricopeptide-repeat-protein
MSKEKLPLEKDVDIELEYKIYHLWDKVKKYLKIILAFVVILLIGSLGYYLYTKKKQEENEKASVYVSKIANLLSEDKKEEARKLIDEFEKKYKDTNFYKVILSYKIMMAKDEGKEDEKLANALKEKLNTQILEGVKEYTAYLKLKQNNTNQAKEILKSIDKDKYNYISAQATLGLIYKKEGNYQEAEKIFNEIKEKKDYRYFSILARENL
>NC_012438.1|WP_012673685.1|1086772_1087480_+|phosphoribosylaminoimidazolesuccinocarboxamide-synthase
MEKLYEGKAKIVYKAQDPDKVVIYFKDEATAFNAQKKDVIEGKGVINNKISSIFFQILEKHGIPTHFVKQLSDREMLAYKTQIIPVEVVVRNLATGSIVKRLGIPEKTPFNPPLIEFYLKNDQLGDPIICYEHILALNLANDQEIKTIKELAFKVNQILKDILIKHDIILVDFKLEFGKKEDGNIVVADEISPDTCRFWDAKTGERMDKDRFRLNLGDLAKFYEEVLRRIENEKD
>NC_012438.1|WP_012675008.1|1087466_1088357_+|UTP--glucose-1-phosphate-uridylyltransferase-GalU
MKKIRKAVIPVAGFGTRFLPATKSTPKEMMPLIDKPIIHYIVEEAVNSGIETIIFVTGRHKRAIEDYFDYYPELEQVLKKAGKEKEIEKLRQISNMAEFVYIRQKEQLGLGHAVLTAERLVGDEPFVVLLGDEIIKNDENPGIKQLIDIYYQFGKSVIGTMEVQKEDVSKYGIVAGKEVINGIKLVETLVEKPAIEEAPSTSAIIGRYVLTPNIFESLKQTTIGKGGELQLTDGLINLRKKEVIYAKDIEGIRHDTGNKIGYLEAILDYALEREDVKEEFIKMLKEKCKEVEQGQS
>NC_012438.1|WP_012673635.1|1088337_1089138_+|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MNKVKAKKQFGQHFLKSQDVVKKIVDEVDIKEDDTILEIGPGTGILTEEILKRNPNKLYSVEIDKSLYPLLEEKFKEYKNFELVKSDIFDVNIKEIAASKKLKVVGNLPYNVASLIMINCVFNMEVVDFCVFMIQKEVAEKLIAKPKTKSYTFLSVFMQTFFDIKYIMSVPARFFSPPPKVTSAVVKLTPYNRFGIKDIKKYKNFVSHLFTDRRKMIRSKLDQSILEKANIKPTLRAEELNVEDFVRLFEVVKNDDRKFGDADSHS
>NC_012438.1|WP_012674309.1|1089097_1089379_+|DUF503-domain-containing-protein
MMIGSLVMQIHIHDAGSLKEKRMVIRSIKEKLRSKFNVSVSEVDNQDLWQLATVAVVTVAPDKNQVESILQNVVNFIYSNFPELHIDVSKEIF
>NC_012438.1|WP_012673832.1|1089391_1089694_+|30S-ribosome-binding-factor-RbfA
MKEKSHRMEKINSLLKKEISDIIFHEYEIGQENFITISVIDTKADLSQADIYVSALKDEDQIIDALNKESGHIRYILGKKIRMKKTPKLVFKKDIFKLQI
>NC_012438.1|WP_012673844.1|1089682_1090504_-|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
MKKLYVIATPIGNLKDITLRALEVLNSVDVIAAEDTRHVQKLLKHYGIFGKKLVSYHNYNEEERAEKLIEILKDKDVALVSDAGTPCISDPGYRIVKKAREKGIEVIPIPGPFAAAVALSASGLPSDKFLFVGFLPNKESEREEDLKYYIDLGFTFILYESPKRVLKTLKTLEKLNPMADVVVAKELTKIHESFFIGKPEDIINLLEENPDKLKGEFVILVHPNQEKVIDIDSILTEAKQLKNQGMKTKEIASLLSKKYKVSKNEIYKKILNL

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Crispr_ID: NC_012438_14

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_14

1166145-1166234

Orphan

Consensus_repeat	Method
AAAAACTTGAAGAAGAAAGAAAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_012438_14

>merge|NC_012438|14|1166145-1166234|CRISPRCasFinder
AAAAACTGGAAAAAGAGAGACAAGAATGGCTGAAAAAATTAGAAGAAGAAAAAAGAGTGTGGGAAGAAAAGTTTGAAAAAGAAAAAGAGA

>NC_012438|14|12|1166145-1166234|CRISPRCasFinder
AAAAACTGGAAAAAGAGAGACAAG	AATGGCTGAAAAAATTAGAAGAAGAAAAAAGAGTGTGGGAAG
AAAAGTTTGAAAAAGAAAAAGAGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012673455.1\|1172974_1173916_-\|flagellar-hook-protein	unknown	unknown	gnl\|CDD\|274195
NC_012438.1\|WP_012674339.1\|1168408_1169602_+\|cation:proton-antiporter	unknown	unknown	gnl\|CDD\|223551
NC_012438.1\|WP_012674814.1\|1176971_1178330_+\|phosphomethylpyrimidine-synthase-ThiC	unknown	unknown	gnl\|CDD\|376689
NC_012438.1\|WP_012673613.1\|1170007_1170322_+\|MTH1187-family-thiamine-binding-protein	unknown	unknown	gnl\|CDD\|376658
NC_012438.1\|WP_012674564.1\|1153170_1154433_+\|TolC-family-protein	unknown	unknown	gnl\|CDD\|224455
NC_012438.1\|WP_012674322.1\|1158488_1160054_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|223510
NC_012438.1\|WP_012674960.1\|1176372_1176720_-\|6-carboxytetrahydropterin-synthase	unknown	unknown	gnl\|CDD\|376501
NC_012438.1\|WP_012675093.1\|1157563_1158127_-\|DUF488-domain-containing-protein	unknown	unknown	gnl\|CDD\|377317
NC_012438.1\|WP_012674902.1\|1160043_1160625_+\|lipoyl(octanoyl)-transferase-LipB	unknown	unknown	gnl\|CDD\|319743
NC_012438.1\|WP_012673940.1\|1155568_1157143_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|129794
NC_012438.1\|WP_012675086.1\|1161685_1163647_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|225110
NC_012438.1\|WP_012673861.1\|1154429_1155566_+\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|273385
NC_012438.1\|WP_012673610.1\|1169605_1170004_+\|EVE-domain-containing-protein	unknown	unknown	gnl\|CDD\|376640
NC_012438.1\|WP_012673934.1\|1163788_1165669_+\|methionine--tRNA-ligase	unknown	unknown	gnl\|CDD\|237028
NC_012438.1\|WP_012674503.1\|1157129_1157567_-\|DUF488-domain-containing-protein	unknown	unknown	gnl\|CDD\|377317
NC_012438.1\|WP_012674419.1\|1173980_1175432_-\|flagellar-hook-associated-protein-FlgK	unknown	unknown	gnl\|CDD\|224176
NC_012438.1\|WP_012675037.1\|1166684_1168409_+\|NAD+-synthase	unknown	unknown	gnl\|CDD\|237577
NC_012438.1\|WP_012673954.1\|1170318_1172973_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|235175
NC_012438.1\|WP_012674201.1\|1175500_1176385_+\|ROK-family-protein	unknown	unknown	gnl\|CDD\|224851
NC_012438.1\|WP_012673772.1\|1160739_1161666_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|235562

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673455.1\|1172974_1173916_-\|flagellar-hook-protein	gnl\|CDD\|274195	TIGR02550, Flagellar_hook-associated_protein_3, flagellar hook-associated protein 3. This protein family consists of flagellar hook-associated proteins designated FlgL (or HAP3) encoded in bacterial flagellar operons. A N-terminal region of about 150 residues and a C-terminal region of about 85 residues are conserved. Members show considerable length heterogeneity between these two well-conserved terminal regions; the seed alignment 486 columns, 393 of which are represented in the model, while members of this family are from 287 to over 500 residues in length. This model distinguishes FlgL from the flagellin gene product FliC. [Cellular processes, Chemotaxis and motility].	8.24683e-44
NC_012438.1\|WP_012674339.1\|1168408_1169602_+\|cation:proton-antiporter	gnl\|CDD\|223551	COG0475, KefB, Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism].	5.7966e-54
NC_012438.1\|WP_012674814.1\|1176971_1178330_+\|phosphomethylpyrimidine-synthase-ThiC	gnl\|CDD\|376689	pfam01964, ThiC_Rad_SAM, Radical SAM ThiC family. ThiC is found within the thiamine biosynthesis operon. ThiC is involved in pyrimidine biosynthesis. ThiC participates in the formation of 4-Amino-5-hydroxymethyl-2-methylpyrimidine from AIR, an intermediate in the de novo pyrimidine biosynthesis. Thic is a member of the radical SAM superfamily.	0
NC_012438.1\|WP_012673613.1\|1170007_1170322_+\|MTH1187-family-thiamine-binding-protein	gnl\|CDD\|376658	pfam01910, Thiamine_BP, Thiamine-binding protein. The crystal structure of two of these members shows that this domain has a ferredoxin like fold and is likely to exists as at least homodimers. Sulphate ions are are located at the dimer interfaces, which are thought to confer additional stability. Although the function of this domain remains to be identified, its structure suggests a role in protein-protein interactions possibly regulated by the binding of small-molecule ligands. Solution of the structure of the hyperthermophilic anaerobic Thermotoga maritima sequence, UniProtKB:Q9WYV6, shows that this has a beta-alpha-beta-beta-alpha-beta ferredoxin-like fold and assembles as a homotetramer. It was possible to identify a pocket in each monmer that bound an unidentified ligand. It was also found that it bound charged thiamine though not hydroxymethyl pyrimidine. It is proposed that it is transporting charged thiamine around the cytoplasm. Under oxidative conditions this bacterium is under stress, and the transcriiptional unit within which this protein is expressed is up-regulated in these conditions, suggesting that the chelation of cytoplasmic thaimine is part of the response mechanism to such oxidatvie stress, which is mediated by this family.	1.14961e-25
NC_012438.1\|WP_012674564.1\|1153170_1154433_+\|TolC-family-protein	gnl\|CDD\|224455	COG1538, TolC, Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion].	4.34634e-54
NC_012438.1\|WP_012674322.1\|1158488_1160054_+\|ATP-binding-protein	gnl\|CDD\|223510	COG0433, COG0433, HerA helicase [Replication, recombination, and repair].	3.64822e-61
NC_012438.1\|WP_012674960.1\|1176372_1176720_-\|6-carboxytetrahydropterin-synthase	gnl\|CDD\|376501	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase. 6-Pyruvoyl tetrahydrobiopterin synthase catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin, the second of three enzymatic steps in the synthesis of tetrahydrobiopterin from GTP. The functional enzyme is a hexamer of identical subunits.	1.01862e-33
NC_012438.1\|WP_012675093.1\|1157563_1158127_-\|DUF488-domain-containing-protein	gnl\|CDD\|377317	pfam04343, DUF488, Protein of unknown function, DUF488. This family includes several proteins of uncharacterized function.	3.22444e-21
NC_012438.1\|WP_012674902.1\|1160043_1160625_+\|lipoyl(octanoyl)-transferase-LipB	gnl\|CDD\|319743	cd16444, LipB, lipoyl/octanoyl transferase. Lipoate-protein ligase B is a octanoyl-[acyl carrier protein]-protein acyltransferase the catalyzes the first step of lipoic acid synthesis. It transfers endogenous octanoic acid attached via a thioester bond to acyl carrier protein (ACP) onto lipoyl domains, which is later converted by lipoate synthase LipA into lipoylated derivatives.	1.25852e-48
NC_012438.1\|WP_012673940.1\|1155568_1157143_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	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].	5.37166e-139
NC_012438.1\|WP_012675086.1\|1161685_1163647_-\|EAL-domain-containing-protein	gnl\|CDD\|225110	COG2200, Rtn, c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms].	4.45426e-66
NC_012438.1\|WP_012673861.1\|1154429_1155566_+\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|273385	TIGR00998, Probable_multidrug_resistance_protein_EmrK, efflux pump membrane protein (multidrug resistance protein A). [Transport and binding proteins, Other].	5.90909e-79
NC_012438.1\|WP_012673610.1\|1169605_1170004_+\|EVE-domain-containing-protein	gnl\|CDD\|376640	pfam01878, EVE, EVE domain. This domain was formerly known as DUF55. Crystal structures have shown that this domain is part of the PUA superfamily. This domain has been named EVE and is thought to be RNA-binding.	1.04865e-44
NC_012438.1\|WP_012673934.1\|1163788_1165669_+\|methionine--tRNA-ligase	gnl\|CDD\|237028	PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.	0
NC_012438.1\|WP_012674503.1\|1157129_1157567_-\|DUF488-domain-containing-protein	gnl\|CDD\|377317	pfam04343, DUF488, Protein of unknown function, DUF488. This family includes several proteins of uncharacterized function.	4.08559e-21
NC_012438.1\|WP_012674419.1\|1173980_1175432_-\|flagellar-hook-associated-protein-FlgK	gnl\|CDD\|224176	COG1256, FlgK, Flagellar hook-associated protein [Cell motility and secretion].	3.06322e-64
NC_012438.1\|WP_012675037.1\|1166684_1168409_+\|NAD+-synthase	gnl\|CDD\|237577	PRK13981, PRK13981, NAD synthetase; Provisional.	0
NC_012438.1\|WP_012673954.1\|1170318_1172973_+\|AAA-family-ATPase	gnl\|CDD\|235175	PRK03918, PRK03918, DNA double-strand break repair ATPase Rad50.	9.36482e-65
NC_012438.1\|WP_012674201.1\|1175500_1176385_+\|ROK-family-protein	gnl\|CDD\|224851	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism].	6.04479e-73
NC_012438.1\|WP_012673772.1\|1160739_1161666_+\|hypothetical-protein	gnl\|CDD\|235562	PRK05687, fliH, flagellar assembly protein FliH.	1.63113e-06

>NC_012438.1|WP_012673934.1|1163788_1165669_+|methionine--tRNA-ligase
MQNKFYITTPIYYVNDVPHLGHAYTTIACDVMARYYRQKGVDTFFLTGTDEHGQKIQKAAEEKGIHPKELADKTHLSFKNLWEKLNISYDRFIRTTDPDHIKAVQHIFQKCYENGDIYLAEYESYYCVGCEEFKTETEIKDYDYKCPIHLKPCEKVKEESYFFRLSKYTEKLLEFYEKNPDFIQPDFRRNEVVSFVKQGLKDLSVSRKKDRVWWGIPVPFDESHTIYVWFDALTNYLTAVGYPDNLNKFWPADVHVVGKDILRFHAVYWPAFLMSAGIEIPKKVFAHGWWTVEGHKMSKSLGNVVDPFKAADEYGVDQLRYFLLREVPFGLDGDFSNQAVVNRINSDLANDLGNLVSRSLTMIQKFQEGNILPYTQLTDLEDEYKNIYEKTIENFDKYLSNLEFSRSLEEVWQFIDWLNKYIVKVEPWKLNKENKEYLKTVLYVLADGIYAILWMLKPFMPTKIQEALNMLGYNEVKNSIQPFSLPTNIKIQEVKPLFPRIEIKPKEQKMEEKQEEKQQEYITIDDFAKVKMRVGKVLEAEKVEKSDKLLKLKVSLGDEERTIVSGIAQYYKPEELIGKYVIVLANLKPRKIFGIESHGMLLAAKDGERLTILTVDKEVDVGSPVS
>NC_012438.1|WP_012675086.1|1161685_1163647_-|EAL-domain-containing-protein
MFLKETSQNFELLRRIIDKSPDIIFTIDLDGKILYVNDTFSEILGYSKEEVIGKHIMEIATEESIYNACMISVKSTGKCLDQETIFRKKDGTLVHVVKNVNALYNEKGDIEYLIVNARDLTHLDNLNKQLQTLKEQLEKRYELIYSIFLNISDAVAILDKDGYYLEQNKSHENLIGYSIEELIGKTPNIHMKKDDLEKIFQEIKSKGSYLGEIQIKTKSGEHKDVELFAFALYDENGKISNIIGIKKDRSLEKELIYLDKLTNLPNRIKLMEDLKNLKEYKVIIVNIDSFKEINDVYGIKIGDMLLNALGNRLKDIGKKHNFNVYKLSGDEFLILIDRFYPKTFLESLVNEIFYEVQSKPFEIEGLSIPIDITIGAAEGSKDETKALEKADMALKYAKQSKKNFVCYDETLKIQEIYQNNISWVRNLKKAIDEDGFLVYYQPILNNQTNKIEKYESLVRVKIDNTVYSPFYFLEIAKKSKLYLAITKKVFKEAIKHAKDYEISINLSVLDILNEEISTEIIKTLKESDLKITFEILESEGIENYEDVSGFIKNVKSFGAKVAIDDFGSGYSNFAYILKLDVDYIKIDASLIKNIHQDINSQIIVENIVNLAKKLGIKTIAEFVHCKEVFEKVKELGIDYSQGYYISEPKDRIS
>NC_012438.1|WP_012673772.1|1160739_1161666_+|hypothetical-protein
MEKIKTDLLLKHLFKNPATKLIEIILGKKVDWQLLQDTDLKIVKNREADLVVKLEDNTILHIEIQSTNDPSMPYRMFEYFYLITDKYKPKDLIQVCIYIGKEPLKMSDKIQFSDWTYRYRLIDIKDIPCKELITSQNITDKLLAGLCKIEDPKFYVENVIKEIKNANPKDRKELFTLFLEISKIRNNIEEEIRSYITQEDFEMPITVEWTREEIESYPVLRDVLKIGKEEGFKEGIEKGIQEGLQQGLQQGLIEGLRQSVIDAIEFKFGYVGYDLKEKVNQISDVNQLKELHRKVVLANSLDEIVSYF
>NC_012438.1|WP_012674902.1|1160043_1160625_+|lipoyl(octanoyl)-transferase-LipB
MSFKIIDLGILDYLEGYKEMRNIHSKAVESGENYLILCQHYDVYTVGENEKEENFPVPVVKTDRGGSITFHGIGQPIFYFVFRVNSPKIFYRKVVKSFDEVFKSLSDKIYHDFKNPGFYIEKRKLASLGFRYSKGYSLHGVAVNHSVNLEKFNLIKPCNLDGYTATSLIAEGINIDIDNLKNEVIKKLYKNFS
>NC_012438.1|WP_012674322.1|1158488_1160054_+|ATP-binding-protein
MEKIGICVGTTSPNRVTFISQKPVKLGQFVNVKYTENGKENKLLGMVINVQRKNTYIPEDLPSINNYERLFKESEKDTKVIGEIQILGEIIETQDQVFLQLQRVPPLPASEVLKPDPKVLEKLFGAKSKSHIRIGRLLAEDKEIPVYVDVNQIVLRHLAILAITGAGKSNTVSVLLENIVNLKGTVVVFDFHGEYTKSDFKRDGKSVVNVIKPVVDPTTLDIRDFAKLIGIKYNATVQFRYFKVAVDKVIQSIRDEKGNDWKRWIDTDQFFNRLEQELESWLDDDNDNVPIKGKIREDSLYEVINKLNDTQNELSHIIKIGAKDLIENIQAGKINVFDLSEVDEDVADAIVSNVLKHALEERKKAVRGKNSKLEKPILVVVEEAHILAGDKRDTDSKYYMMRIAREGRKFGLGLCVVTQRPKGLDKEILSQMNNMIILKLVEPEDQKHVQSASEALSSELMSYLPSLNPGEAIIIGNMTKLPLLVKIDKAKGKVQGNDIQVVDLWTTTEEKRSDLKALDEF
>NC_012438.1|WP_012675093.1|1157563_1158127_-|DUF488-domain-containing-protein
MVYDINVLIDVRSVPFSKYANQFNSDNLKLFLKERGIYYIYMGKNLGARWFQKNLLFEDGKVNFEKVKKTKEFQEGILRIQNGVDKGYTIALMCSEEEALNCHRFVLISPVLAERGYQVYHIYPEYLLSQNDLISRMINMYKHKLMQKSLFKTAEDLENDKDIVKKAFILRNKDIAYNAYTKVGDEE
>NC_012438.1|WP_012674503.1|1157129_1157567_-|DUF488-domain-containing-protein
MNIYTIGFSGKTAEEFFTTLRKHNVKKLIDIRLNNKSQLAGFTNIKHLPYFLKLHNIEYMYLPIFAPTKELLYSYDKKKIDWEDYEKIFLQILEKRKILEKVKIEDFDNAVLLCSEPTAEKCHRRLTAEYLKENFPEKEIKIIHL
>NC_012438.1|WP_012673940.1|1155568_1157143_+|DHA2-family-efflux-MFS-transporter-permease-subunit
MENTKPIYERITTLERALITFIVMSGAFMAILDTTIVDVVVPKMMGPLQTDLYGIQWVITAYMIASAVMLILSEWLDKVIGLRKVYIAGIVLFTFSSFMCGQAQNLDWMITARVFQGIGEALIMATAQTILFSVYPEEKKGMAMGIFGLGVSFAPALGPTLGGYITEYLNWRWVFFINIPFGILTTILAIFYLPETSMIREKAKLNFVSYFFLSVFTISLLIFLSKGQQLGWFMSDVIVYLFIVSILSLLLYILSEILSKEPLIDFRIFLIKEYFVGFSVFFLLLGFSMYQVFYLIPLYYENLKGLSTFDAGLHILAFAMFIAIFSPVAGILSDKWNERYVLYIATAIYLISSIFILPNLDYYTPKVRAALMTIPLGIAMGMFFAPVTTLALRKLGEKTSLGTGLMHYGRFVGGSFGTAIATNDLYKHQWEHFEGINAMQNNTYVQSFIDKVKESIVSLPDQIAEAKAKALLYSVEYLHSLNFSFQDTFFIAGLFGLVGSLPVIYMFISDIIHKNSNSDKSINE
>NC_012438.1|WP_012673861.1|1154429_1155566_+|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit
MNGKGKKVGLIITVLLIVVFLIYAVKWINHRMKYAISDAVFVESDYLSNIGFNRVSGRVVQLYKKESDEVKAGEVIAKIDDTDYKLQIEALEKEIEALTYQKKQLESQLQRVARETDINESISALTVEEISKKLESLKAQKDQIESQIKLAKKDEERYRNLLEKGLVAKRKYEEVHTNLEVLEKQKLAIEKNISELKVSMEKSKKSVEYAKTQKSITEELQNQINAISSQIESLLKKKQDLENQLQYTELKAPFNGVVAKKFVSIGDVVKAGQPVYAILKSDSFYVKVLLEETKLEGVKVGNKAYIKLDAYPDKTFEGVVESIDVASAAKFALVPRDISAGEFTKLAQRIPVKIRITKGDISLLRVGLGGEVEIEKSR
>NC_012438.1|WP_012674564.1|1153170_1154433_+|TolC-family-protein
MKKLIFSLIFISSANAITLQEAVNKALENNKEILSYKQQIKTAEFQLKVDQTLYLPTIYTQVSQSFYNQTPMTKIPNFPVSFKQSNRDFLKFDIGFSQSLYTGGLTQAKIEASKYNLKATQSFYKEKENQIKAEVIKAYIDVFISKSLIDIYKKELEAVESIYKQQEAFFKEGIITKVDLLQSKVRLAEVKRDLQQAEGNYKIALSRLSQLIGEDLKDENFEPLNIEIKDIPSLDTLIETAYQKRKILDFYKENINQAEKVVEIEKSAFLPKVFLQGDYIYTNQSPYLDPKGNFLLTLGASIEFQTTQPYYKILQAKSNAKKLRFDLQDTKEKIKLELKTAYENYITAKENYKVALESLDYAKEYFELVKEQYTNQLATNTDLLNAESALTRALESKEINYYNLLKSYIDIKKAVGEDIP
>NC_012438.1|WP_012675037.1|1166684_1168409_+|NAD+-synthase
MRKIRVALGQINPIVGDFDYNLQKILDYIKKAKDLQVDIIAFPELALTGYPPEDLILKPSFIEKNLQYIKKLTENVEDIVVIVGFIDKKEDIYNAAAIIHNKNIIATYHKQFLPNYGVFDENRYFQKGNGLTVFEIEGYKFGVSICEDIWYPENPINTYAVEGCEVIFNINASPYSEGKVKKREELLKVRSRDNLVSIAYVNLVGGQDELVFDGNSFFVNPNGEILGKGESFKEDLVVADIDLDEIFRYQLKDNRLKNLRSEYRRSDKVNYIKVDYQIKEKTVNIEQKIVLDKPDIENTYNTLVLGLRDYITKNGFKKVVIGLSGGVDSSLVATIAVDALGNENVKGVLMPSPYTSKESIEDALELAKNLNIETFIIPITNIFQTYLDEFKEIFKGLKPDTTEENLQARIRGNILMALSNKFGWIVLATGNKSEMSVGYSTLYGDMVGGFAVIKDVLKTKVYQLCEYRNSISKVIPDRVLIKPPSAELRPNQTDEAELAPYHILDEIIKMYVEQDCSVEEIIKAGFDEKTVKKIVKLIDTNEYKRRQSPIGIKITERAFGKDRRMPITNRFKEI
>NC_012438.1|WP_012674339.1|1168408_1169602_+|cation:proton-antiporter
MDLHYLFLSLAAIIFVGRVLGDLFNKFGIPAVLGEIFAGIVLGTSVLGLIEVNDAIKVLAEIGIILLLFKVGLEADIHQLKKVGIPAFIVATVGAALPMLFGSLLSYYLFNLPLTTSLFIGGTLTATSIGITVKVLTDLGKMNQRFAQIVLAAAVLDDIFGVIVLAVLYEFAKKGTVDITSTITMIFYIATFFVLAPVLAKVFAKLINVFAIKLKSEDFIPVAVMSLIFLFAFLSHEVGSPEILGAFTVGLALSRRFVIPFAVFLKIEEKEKMVEKVEHSINPLVSILTPIFFVSIGLSLNLKAIDFTSLDFWKISIVLLIVAILGKVLSGFFVKGTSKEKLLIGFSMLPRGEVGLIFAELGKQAKLFDDLLYAVIIFVVAFTTLISPIILKILVKG
>NC_012438.1|WP_012673610.1|1169605_1170004_+|EVE-domain-containing-protein
MENYYLLKTEPSEYSYDDLEKEGRTVWNGVKNPLAQKFIKSMKPKDKVFIYHSGKEKAIVGLGEVISEPYLDENNLYVVDIKPLKRLKLLTLKEIKSITDFKDFYLVRMPRLSVMPVPENLVKLILEKSDGG
>NC_012438.1|WP_012673613.1|1170007_1170322_+|MTH1187-family-thiamine-binding-protein
MSFLVEFSMFPTDKGESVSQYVSRIIKMIDSSGVPYKLTPMGTVFETNTMEEALNIINQAYKQLEPDCNRVYTVIKMDIRKNAENRIEGKVKSVEEKLGKEVKK
>NC_012438.1|WP_012673954.1|1170318_1172973_+|AAA-family-ATPase
MIITKLTLKNFLAHDNTQVEFSPSGITAIIGENGSGKTSILEGIMFALFGKSSKGNQIDLIKWGRNKALVELEFIKNGTTYKIVRELDKKGRTVSSTALLYRIESGRQVLERQKNLKQELPKITGISEKTFLNSILIRQGEIEGFIKQKPADREKTIEEILDLHMYAKLLEKYADKRKNYEKQLEILKTEKVDKQSLEDQIKTITDQINQLETVLNQLTQEKQSLEQQLNQTEEKINQYSLLENEKRLLETKIDNIEQKIEEINKKIKEIEGLKQQLPELQEKVKQLQDIEKHYEKLKNLENLYIKLSHVEKDLEEIQKKIEFKQKFQPIYQDITQKQDQLKQISQEIIRLEKIKGEIEQLEKQLKEKQKDLATKKQKYDQIVKQLLHYYSKFQQLFLNPFMIDEHINQNRYKMENLSKELDKVKQEKADIEAEGKQLKEKLSNLSSIHGDCPTCGRPLEEHQKEELINEINKVLEEKRNKHKQLTQKQKEIEEELKKQKEIEQLLNQLKPIYDSIKEVEKEISTYESKIKAKQHQIKDLDLLKSQKEDIEKFILSHSQDFGYYQKILQENLEEIKQKLIEEQNMILKDIESIGLKVEPLQIKQEISEASNKIQQLKPFNDSYNQILPKLKEEDSLERQLQESENTKTQLENQLNDIEEKLKDLDIEKFKEEKEKIKAQIEEKNKEISEKNQQLGHLKGQKSILEDGLKKAEEQEERIEHLSGKVKKYYKVENAIQQIQKLLKQNAMYNLPKITEEIFNRFGFNQFINLKFSEKYDIVLTANTVSSSNVEVNIDALSGGQRVALSIALRLAIAKLLNEKADFLILDEPTIFLDDERKKELVDLFGELKESNFIKQLIITTHDEELEGWANVIYKVKDGSVELIS
>NC_012438.1|WP_012673455.1|1172974_1173916_-|flagellar-hook-protein
MRIADLIKYDNYIKNDQIRQNEIEKYTRQIATGIKLLSPSDDTVGTVSALRLKTINEDIERYGRNMDFVNTILDSAETQLNSIAAAGQEVRVEIVRLLNTGVLDKEDAKVLRDYFVNMKDYIIKQANFKIGDTALFGGVKTQTDPFAPDGTYQGETVETKVPTAPGVELNTTFNGRVYLGVNNDTNKMILTETIDKIVNIIDNAISGTGSLGDLNTATISVNGKNVKLLEAFDIGLNTVMQYRSVIGTQVKTIQDLKTINDQNKVFNKDLISKLEDVDVAEAITNLQKAQVAYQALISVFNQNRQLSLLDFFK
>NC_012438.1|WP_012674419.1|1173980_1175432_-|flagellar-hook-associated-protein-FlgK
MSLLGILSTAGQSLLTFQRGINSTNKNISNATTEGYNREVPVFQDFPRSGVFMNKIIRVFDRSLFNRSIELNQQLNSDNSFSEILSNIETMFNDTLGSGFSSDLNNFFNSINDMLIKPDDIAARSQFLANAQTLVGKIRSINDSLDNQKQDITLKVRDQVKQINQITDQLAKLNQTIKTKTLDIEANNEYLNERDRLIKQLSDLIDTKVVFNEDNTVNVFTAKGYGLVVGIQSTPLSFETDTNGNPVVKWNGVADITTEIQNGQLGGNLKGIKSINDQLNKLNDFTTVFATVFNKVHKKGYGLDGSTNLDFFTIDPSKSSTKIDASNIYLNITDPKKVALAQNSTYLNSDNTNGKDLLGLKNNIRVLYTNPSQPVLTPAEEAALQSSLNDSTNYTYIKDHTFAEFYNTKLVADISSTSSYIKQQQQNNKYLYDAITEKMKNIAGVNMDEELINLSKLQRSYQASARIITVTDELMQTILNLGK
>NC_012438.1|WP_012674201.1|1175500_1176385_+|ROK-family-protein
MSRFLGVDIGGTFLKVAFKEDDEIKTEKVAVKDIQKKDYFLRSLSQVIKKYNPHRIGIAIAGLVDKKTGLLTNSPNLKFLEGLNLKEFIEREFNVEVFVENDANVAAYGEYVYGNGKDSKVLVCLTLGTGLGGGLVIDGKIFSGVSGSAMEIGHITIEKDGFLCHCGRKGCLESYVSSYGLERLYCLISEDRKTSFDIINLAKQNDEKAVQTFEVFTDYLAIGIMSIAHIFNPDTVLLAGGIIENYPMVLTLTKSKVEKLVFPLPLRDLHIDTAKLGSWSGAYGALALAEIYSS
>NC_012438.1|WP_012674960.1|1176372_1176720_-|6-carboxytetrahydropterin-synthase
MPYIVRVKQKFNAAHFLTDYHGKPEPLHGHTWMVELYIKADKLDNGGMGYDFLEIKDLLKEILPDYKCMNDIYDFSPSAENVAKYIYDQVKKKYPTLVKVVVWETEEGGAEYYEE
>NC_012438.1|WP_012674814.1|1176971_1178330_+|phosphomethylpyrimidine-synthase-ThiC
MRFYVSKRRGQKNVTQMHYARQGIITEEMEYVAKREDLPVELVREEVARGRMVIPANINHINLEPMAIGIAAKCKVNANIGNSAITSDIETELEKLRVALKYGADTVMDLSTGGNLNEIRKAIIENSPVPVGTVPIYQALQEVRSIEKLTEQDILDIIELQAQQGVDYMTIHAGLLREFLPLVNHRLMGIVSRGGSIIAQWMIVHGKQNPLYTNFDKICEIFKKYDVTFSLGDGLRPGCINDASDEAQFAELKVLGELTKKAWEHDVQVMVEGPGHVPMDQIEMNIKKQMELCHEAPFYVLGPLVTDIAPGYDHIASAIGAAMAGWYGAAMLCYVTPKEHLGLPNPEDVKQGLIAYKIAAHAADLARHRKGAKEWDDEMSRARYNFDWERQFELAIDPETARKYHDETLPQEGFKSAKFCSMCGPSFCAYKISQNVQEAVKENEVEFLPIIK

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Crispr_ID: NC_012438_13

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_13

1165980-1166070

Orphan

Consensus_repeat	Method
AAAAACTTGAAGAAGAAAGAAAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_012438_13

>merge|NC_012438|13|1165980-1166070|CRISPRCasFinder
AAAAACTTGAAGAAGAAAGAAAACAACGAGAAGAGGAGAGAAAGAAAGACAGAGAAGAATGGCTAAAAAAACTTGAAGAAGAAAGAAAACT

>NC_012438|13|11|1165980-1166070|CRISPRCasFinder
AAAAACTTGAAGAAGAAAGAAAAC	AACGAGAAGAGGAGAGAAAGAAAGACAGAGAAGAATGGCTAA
AAAAACTTGAAGAAGAAAGAAAACT

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012673455.1\|1172974_1173916_-\|flagellar-hook-protein	unknown	unknown	gnl\|CDD\|274195
NC_012438.1\|WP_012674339.1\|1168408_1169602_+\|cation:proton-antiporter	unknown	unknown	gnl\|CDD\|223551
NC_012438.1\|WP_012674814.1\|1176971_1178330_+\|phosphomethylpyrimidine-synthase-ThiC	unknown	unknown	gnl\|CDD\|376689
NC_012438.1\|WP_012673613.1\|1170007_1170322_+\|MTH1187-family-thiamine-binding-protein	unknown	unknown	gnl\|CDD\|376658
NC_012438.1\|WP_012674564.1\|1153170_1154433_+\|TolC-family-protein	unknown	unknown	gnl\|CDD\|224455
NC_012438.1\|WP_012674322.1\|1158488_1160054_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|223510
NC_012438.1\|WP_012674960.1\|1176372_1176720_-\|6-carboxytetrahydropterin-synthase	unknown	unknown	gnl\|CDD\|376501
NC_012438.1\|WP_012675093.1\|1157563_1158127_-\|DUF488-domain-containing-protein	unknown	unknown	gnl\|CDD\|377317
NC_012438.1\|WP_012674902.1\|1160043_1160625_+\|lipoyl(octanoyl)-transferase-LipB	unknown	unknown	gnl\|CDD\|319743
NC_012438.1\|WP_012673940.1\|1155568_1157143_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|129794
NC_012438.1\|WP_012675086.1\|1161685_1163647_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|225110
NC_012438.1\|WP_012673861.1\|1154429_1155566_+\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|273385
NC_012438.1\|WP_012673610.1\|1169605_1170004_+\|EVE-domain-containing-protein	unknown	unknown	gnl\|CDD\|376640
NC_012438.1\|WP_012673934.1\|1163788_1165669_+\|methionine--tRNA-ligase	unknown	unknown	gnl\|CDD\|237028
NC_012438.1\|WP_012674503.1\|1157129_1157567_-\|DUF488-domain-containing-protein	unknown	unknown	gnl\|CDD\|377317
NC_012438.1\|WP_012674419.1\|1173980_1175432_-\|flagellar-hook-associated-protein-FlgK	unknown	unknown	gnl\|CDD\|224176
NC_012438.1\|WP_012675037.1\|1166684_1168409_+\|NAD+-synthase	unknown	unknown	gnl\|CDD\|237577
NC_012438.1\|WP_012673954.1\|1170318_1172973_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|235175
NC_012438.1\|WP_012674201.1\|1175500_1176385_+\|ROK-family-protein	unknown	unknown	gnl\|CDD\|224851
NC_012438.1\|WP_012673772.1\|1160739_1161666_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|235562

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673455.1\|1172974_1173916_-\|flagellar-hook-protein	gnl\|CDD\|274195	TIGR02550, Flagellar_hook-associated_protein_3, flagellar hook-associated protein 3. This protein family consists of flagellar hook-associated proteins designated FlgL (or HAP3) encoded in bacterial flagellar operons. A N-terminal region of about 150 residues and a C-terminal region of about 85 residues are conserved. Members show considerable length heterogeneity between these two well-conserved terminal regions; the seed alignment 486 columns, 393 of which are represented in the model, while members of this family are from 287 to over 500 residues in length. This model distinguishes FlgL from the flagellin gene product FliC. [Cellular processes, Chemotaxis and motility].	8.24683e-44
NC_012438.1\|WP_012674339.1\|1168408_1169602_+\|cation:proton-antiporter	gnl\|CDD\|223551	COG0475, KefB, Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism].	5.7966e-54
NC_012438.1\|WP_012674814.1\|1176971_1178330_+\|phosphomethylpyrimidine-synthase-ThiC	gnl\|CDD\|376689	pfam01964, ThiC_Rad_SAM, Radical SAM ThiC family. ThiC is found within the thiamine biosynthesis operon. ThiC is involved in pyrimidine biosynthesis. ThiC participates in the formation of 4-Amino-5-hydroxymethyl-2-methylpyrimidine from AIR, an intermediate in the de novo pyrimidine biosynthesis. Thic is a member of the radical SAM superfamily.	0
NC_012438.1\|WP_012673613.1\|1170007_1170322_+\|MTH1187-family-thiamine-binding-protein	gnl\|CDD\|376658	pfam01910, Thiamine_BP, Thiamine-binding protein. The crystal structure of two of these members shows that this domain has a ferredoxin like fold and is likely to exists as at least homodimers. Sulphate ions are are located at the dimer interfaces, which are thought to confer additional stability. Although the function of this domain remains to be identified, its structure suggests a role in protein-protein interactions possibly regulated by the binding of small-molecule ligands. Solution of the structure of the hyperthermophilic anaerobic Thermotoga maritima sequence, UniProtKB:Q9WYV6, shows that this has a beta-alpha-beta-beta-alpha-beta ferredoxin-like fold and assembles as a homotetramer. It was possible to identify a pocket in each monmer that bound an unidentified ligand. It was also found that it bound charged thiamine though not hydroxymethyl pyrimidine. It is proposed that it is transporting charged thiamine around the cytoplasm. Under oxidative conditions this bacterium is under stress, and the transcriiptional unit within which this protein is expressed is up-regulated in these conditions, suggesting that the chelation of cytoplasmic thaimine is part of the response mechanism to such oxidatvie stress, which is mediated by this family.	1.14961e-25
NC_012438.1\|WP_012674564.1\|1153170_1154433_+\|TolC-family-protein	gnl\|CDD\|224455	COG1538, TolC, Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion].	4.34634e-54
NC_012438.1\|WP_012674322.1\|1158488_1160054_+\|ATP-binding-protein	gnl\|CDD\|223510	COG0433, COG0433, HerA helicase [Replication, recombination, and repair].	3.64822e-61
NC_012438.1\|WP_012674960.1\|1176372_1176720_-\|6-carboxytetrahydropterin-synthase	gnl\|CDD\|376501	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase. 6-Pyruvoyl tetrahydrobiopterin synthase catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin, the second of three enzymatic steps in the synthesis of tetrahydrobiopterin from GTP. The functional enzyme is a hexamer of identical subunits.	1.01862e-33
NC_012438.1\|WP_012675093.1\|1157563_1158127_-\|DUF488-domain-containing-protein	gnl\|CDD\|377317	pfam04343, DUF488, Protein of unknown function, DUF488. This family includes several proteins of uncharacterized function.	3.22444e-21
NC_012438.1\|WP_012674902.1\|1160043_1160625_+\|lipoyl(octanoyl)-transferase-LipB	gnl\|CDD\|319743	cd16444, LipB, lipoyl/octanoyl transferase. Lipoate-protein ligase B is a octanoyl-[acyl carrier protein]-protein acyltransferase the catalyzes the first step of lipoic acid synthesis. It transfers endogenous octanoic acid attached via a thioester bond to acyl carrier protein (ACP) onto lipoyl domains, which is later converted by lipoate synthase LipA into lipoylated derivatives.	1.25852e-48
NC_012438.1\|WP_012673940.1\|1155568_1157143_+\|DHA2-family-efflux-MFS-transporter-permease-subunit	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].	5.37166e-139
NC_012438.1\|WP_012675086.1\|1161685_1163647_-\|EAL-domain-containing-protein	gnl\|CDD\|225110	COG2200, Rtn, c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms].	4.45426e-66
NC_012438.1\|WP_012673861.1\|1154429_1155566_+\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|273385	TIGR00998, Probable_multidrug_resistance_protein_EmrK, efflux pump membrane protein (multidrug resistance protein A). [Transport and binding proteins, Other].	5.90909e-79
NC_012438.1\|WP_012673610.1\|1169605_1170004_+\|EVE-domain-containing-protein	gnl\|CDD\|376640	pfam01878, EVE, EVE domain. This domain was formerly known as DUF55. Crystal structures have shown that this domain is part of the PUA superfamily. This domain has been named EVE and is thought to be RNA-binding.	1.04865e-44
NC_012438.1\|WP_012673934.1\|1163788_1165669_+\|methionine--tRNA-ligase	gnl\|CDD\|237028	PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed.	0
NC_012438.1\|WP_012674503.1\|1157129_1157567_-\|DUF488-domain-containing-protein	gnl\|CDD\|377317	pfam04343, DUF488, Protein of unknown function, DUF488. This family includes several proteins of uncharacterized function.	4.08559e-21
NC_012438.1\|WP_012674419.1\|1173980_1175432_-\|flagellar-hook-associated-protein-FlgK	gnl\|CDD\|224176	COG1256, FlgK, Flagellar hook-associated protein [Cell motility and secretion].	3.06322e-64
NC_012438.1\|WP_012675037.1\|1166684_1168409_+\|NAD+-synthase	gnl\|CDD\|237577	PRK13981, PRK13981, NAD synthetase; Provisional.	0
NC_012438.1\|WP_012673954.1\|1170318_1172973_+\|AAA-family-ATPase	gnl\|CDD\|235175	PRK03918, PRK03918, DNA double-strand break repair ATPase Rad50.	9.36482e-65
NC_012438.1\|WP_012674201.1\|1175500_1176385_+\|ROK-family-protein	gnl\|CDD\|224851	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism].	6.04479e-73
NC_012438.1\|WP_012673772.1\|1160739_1161666_+\|hypothetical-protein	gnl\|CDD\|235562	PRK05687, fliH, flagellar assembly protein FliH.	1.63113e-06

>NC_012438.1|WP_012673934.1|1163788_1165669_+|methionine--tRNA-ligase
MQNKFYITTPIYYVNDVPHLGHAYTTIACDVMARYYRQKGVDTFFLTGTDEHGQKIQKAAEEKGIHPKELADKTHLSFKNLWEKLNISYDRFIRTTDPDHIKAVQHIFQKCYENGDIYLAEYESYYCVGCEEFKTETEIKDYDYKCPIHLKPCEKVKEESYFFRLSKYTEKLLEFYEKNPDFIQPDFRRNEVVSFVKQGLKDLSVSRKKDRVWWGIPVPFDESHTIYVWFDALTNYLTAVGYPDNLNKFWPADVHVVGKDILRFHAVYWPAFLMSAGIEIPKKVFAHGWWTVEGHKMSKSLGNVVDPFKAADEYGVDQLRYFLLREVPFGLDGDFSNQAVVNRINSDLANDLGNLVSRSLTMIQKFQEGNILPYTQLTDLEDEYKNIYEKTIENFDKYLSNLEFSRSLEEVWQFIDWLNKYIVKVEPWKLNKENKEYLKTVLYVLADGIYAILWMLKPFMPTKIQEALNMLGYNEVKNSIQPFSLPTNIKIQEVKPLFPRIEIKPKEQKMEEKQEEKQQEYITIDDFAKVKMRVGKVLEAEKVEKSDKLLKLKVSLGDEERTIVSGIAQYYKPEELIGKYVIVLANLKPRKIFGIESHGMLLAAKDGERLTILTVDKEVDVGSPVS
>NC_012438.1|WP_012675086.1|1161685_1163647_-|EAL-domain-containing-protein
MFLKETSQNFELLRRIIDKSPDIIFTIDLDGKILYVNDTFSEILGYSKEEVIGKHIMEIATEESIYNACMISVKSTGKCLDQETIFRKKDGTLVHVVKNVNALYNEKGDIEYLIVNARDLTHLDNLNKQLQTLKEQLEKRYELIYSIFLNISDAVAILDKDGYYLEQNKSHENLIGYSIEELIGKTPNIHMKKDDLEKIFQEIKSKGSYLGEIQIKTKSGEHKDVELFAFALYDENGKISNIIGIKKDRSLEKELIYLDKLTNLPNRIKLMEDLKNLKEYKVIIVNIDSFKEINDVYGIKIGDMLLNALGNRLKDIGKKHNFNVYKLSGDEFLILIDRFYPKTFLESLVNEIFYEVQSKPFEIEGLSIPIDITIGAAEGSKDETKALEKADMALKYAKQSKKNFVCYDETLKIQEIYQNNISWVRNLKKAIDEDGFLVYYQPILNNQTNKIEKYESLVRVKIDNTVYSPFYFLEIAKKSKLYLAITKKVFKEAIKHAKDYEISINLSVLDILNEEISTEIIKTLKESDLKITFEILESEGIENYEDVSGFIKNVKSFGAKVAIDDFGSGYSNFAYILKLDVDYIKIDASLIKNIHQDINSQIIVENIVNLAKKLGIKTIAEFVHCKEVFEKVKELGIDYSQGYYISEPKDRIS
>NC_012438.1|WP_012673772.1|1160739_1161666_+|hypothetical-protein
MEKIKTDLLLKHLFKNPATKLIEIILGKKVDWQLLQDTDLKIVKNREADLVVKLEDNTILHIEIQSTNDPSMPYRMFEYFYLITDKYKPKDLIQVCIYIGKEPLKMSDKIQFSDWTYRYRLIDIKDIPCKELITSQNITDKLLAGLCKIEDPKFYVENVIKEIKNANPKDRKELFTLFLEISKIRNNIEEEIRSYITQEDFEMPITVEWTREEIESYPVLRDVLKIGKEEGFKEGIEKGIQEGLQQGLQQGLIEGLRQSVIDAIEFKFGYVGYDLKEKVNQISDVNQLKELHRKVVLANSLDEIVSYF
>NC_012438.1|WP_012674902.1|1160043_1160625_+|lipoyl(octanoyl)-transferase-LipB
MSFKIIDLGILDYLEGYKEMRNIHSKAVESGENYLILCQHYDVYTVGENEKEENFPVPVVKTDRGGSITFHGIGQPIFYFVFRVNSPKIFYRKVVKSFDEVFKSLSDKIYHDFKNPGFYIEKRKLASLGFRYSKGYSLHGVAVNHSVNLEKFNLIKPCNLDGYTATSLIAEGINIDIDNLKNEVIKKLYKNFS
>NC_012438.1|WP_012674322.1|1158488_1160054_+|ATP-binding-protein
MEKIGICVGTTSPNRVTFISQKPVKLGQFVNVKYTENGKENKLLGMVINVQRKNTYIPEDLPSINNYERLFKESEKDTKVIGEIQILGEIIETQDQVFLQLQRVPPLPASEVLKPDPKVLEKLFGAKSKSHIRIGRLLAEDKEIPVYVDVNQIVLRHLAILAITGAGKSNTVSVLLENIVNLKGTVVVFDFHGEYTKSDFKRDGKSVVNVIKPVVDPTTLDIRDFAKLIGIKYNATVQFRYFKVAVDKVIQSIRDEKGNDWKRWIDTDQFFNRLEQELESWLDDDNDNVPIKGKIREDSLYEVINKLNDTQNELSHIIKIGAKDLIENIQAGKINVFDLSEVDEDVADAIVSNVLKHALEERKKAVRGKNSKLEKPILVVVEEAHILAGDKRDTDSKYYMMRIAREGRKFGLGLCVVTQRPKGLDKEILSQMNNMIILKLVEPEDQKHVQSASEALSSELMSYLPSLNPGEAIIIGNMTKLPLLVKIDKAKGKVQGNDIQVVDLWTTTEEKRSDLKALDEF
>NC_012438.1|WP_012675093.1|1157563_1158127_-|DUF488-domain-containing-protein
MVYDINVLIDVRSVPFSKYANQFNSDNLKLFLKERGIYYIYMGKNLGARWFQKNLLFEDGKVNFEKVKKTKEFQEGILRIQNGVDKGYTIALMCSEEEALNCHRFVLISPVLAERGYQVYHIYPEYLLSQNDLISRMINMYKHKLMQKSLFKTAEDLENDKDIVKKAFILRNKDIAYNAYTKVGDEE
>NC_012438.1|WP_012674503.1|1157129_1157567_-|DUF488-domain-containing-protein
MNIYTIGFSGKTAEEFFTTLRKHNVKKLIDIRLNNKSQLAGFTNIKHLPYFLKLHNIEYMYLPIFAPTKELLYSYDKKKIDWEDYEKIFLQILEKRKILEKVKIEDFDNAVLLCSEPTAEKCHRRLTAEYLKENFPEKEIKIIHL
>NC_012438.1|WP_012673940.1|1155568_1157143_+|DHA2-family-efflux-MFS-transporter-permease-subunit
MENTKPIYERITTLERALITFIVMSGAFMAILDTTIVDVVVPKMMGPLQTDLYGIQWVITAYMIASAVMLILSEWLDKVIGLRKVYIAGIVLFTFSSFMCGQAQNLDWMITARVFQGIGEALIMATAQTILFSVYPEEKKGMAMGIFGLGVSFAPALGPTLGGYITEYLNWRWVFFINIPFGILTTILAIFYLPETSMIREKAKLNFVSYFFLSVFTISLLIFLSKGQQLGWFMSDVIVYLFIVSILSLLLYILSEILSKEPLIDFRIFLIKEYFVGFSVFFLLLGFSMYQVFYLIPLYYENLKGLSTFDAGLHILAFAMFIAIFSPVAGILSDKWNERYVLYIATAIYLISSIFILPNLDYYTPKVRAALMTIPLGIAMGMFFAPVTTLALRKLGEKTSLGTGLMHYGRFVGGSFGTAIATNDLYKHQWEHFEGINAMQNNTYVQSFIDKVKESIVSLPDQIAEAKAKALLYSVEYLHSLNFSFQDTFFIAGLFGLVGSLPVIYMFISDIIHKNSNSDKSINE
>NC_012438.1|WP_012673861.1|1154429_1155566_+|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit
MNGKGKKVGLIITVLLIVVFLIYAVKWINHRMKYAISDAVFVESDYLSNIGFNRVSGRVVQLYKKESDEVKAGEVIAKIDDTDYKLQIEALEKEIEALTYQKKQLESQLQRVARETDINESISALTVEEISKKLESLKAQKDQIESQIKLAKKDEERYRNLLEKGLVAKRKYEEVHTNLEVLEKQKLAIEKNISELKVSMEKSKKSVEYAKTQKSITEELQNQINAISSQIESLLKKKQDLENQLQYTELKAPFNGVVAKKFVSIGDVVKAGQPVYAILKSDSFYVKVLLEETKLEGVKVGNKAYIKLDAYPDKTFEGVVESIDVASAAKFALVPRDISAGEFTKLAQRIPVKIRITKGDISLLRVGLGGEVEIEKSR
>NC_012438.1|WP_012674564.1|1153170_1154433_+|TolC-family-protein
MKKLIFSLIFISSANAITLQEAVNKALENNKEILSYKQQIKTAEFQLKVDQTLYLPTIYTQVSQSFYNQTPMTKIPNFPVSFKQSNRDFLKFDIGFSQSLYTGGLTQAKIEASKYNLKATQSFYKEKENQIKAEVIKAYIDVFISKSLIDIYKKELEAVESIYKQQEAFFKEGIITKVDLLQSKVRLAEVKRDLQQAEGNYKIALSRLSQLIGEDLKDENFEPLNIEIKDIPSLDTLIETAYQKRKILDFYKENINQAEKVVEIEKSAFLPKVFLQGDYIYTNQSPYLDPKGNFLLTLGASIEFQTTQPYYKILQAKSNAKKLRFDLQDTKEKIKLELKTAYENYITAKENYKVALESLDYAKEYFELVKEQYTNQLATNTDLLNAESALTRALESKEINYYNLLKSYIDIKKAVGEDIP
>NC_012438.1|WP_012675037.1|1166684_1168409_+|NAD+-synthase
MRKIRVALGQINPIVGDFDYNLQKILDYIKKAKDLQVDIIAFPELALTGYPPEDLILKPSFIEKNLQYIKKLTENVEDIVVIVGFIDKKEDIYNAAAIIHNKNIIATYHKQFLPNYGVFDENRYFQKGNGLTVFEIEGYKFGVSICEDIWYPENPINTYAVEGCEVIFNINASPYSEGKVKKREELLKVRSRDNLVSIAYVNLVGGQDELVFDGNSFFVNPNGEILGKGESFKEDLVVADIDLDEIFRYQLKDNRLKNLRSEYRRSDKVNYIKVDYQIKEKTVNIEQKIVLDKPDIENTYNTLVLGLRDYITKNGFKKVVIGLSGGVDSSLVATIAVDALGNENVKGVLMPSPYTSKESIEDALELAKNLNIETFIIPITNIFQTYLDEFKEIFKGLKPDTTEENLQARIRGNILMALSNKFGWIVLATGNKSEMSVGYSTLYGDMVGGFAVIKDVLKTKVYQLCEYRNSISKVIPDRVLIKPPSAELRPNQTDEAELAPYHILDEIIKMYVEQDCSVEEIIKAGFDEKTVKKIVKLIDTNEYKRRQSPIGIKITERAFGKDRRMPITNRFKEI
>NC_012438.1|WP_012674339.1|1168408_1169602_+|cation:proton-antiporter
MDLHYLFLSLAAIIFVGRVLGDLFNKFGIPAVLGEIFAGIVLGTSVLGLIEVNDAIKVLAEIGIILLLFKVGLEADIHQLKKVGIPAFIVATVGAALPMLFGSLLSYYLFNLPLTTSLFIGGTLTATSIGITVKVLTDLGKMNQRFAQIVLAAAVLDDIFGVIVLAVLYEFAKKGTVDITSTITMIFYIATFFVLAPVLAKVFAKLINVFAIKLKSEDFIPVAVMSLIFLFAFLSHEVGSPEILGAFTVGLALSRRFVIPFAVFLKIEEKEKMVEKVEHSINPLVSILTPIFFVSIGLSLNLKAIDFTSLDFWKISIVLLIVAILGKVLSGFFVKGTSKEKLLIGFSMLPRGEVGLIFAELGKQAKLFDDLLYAVIIFVVAFTTLISPIILKILVKG
>NC_012438.1|WP_012673610.1|1169605_1170004_+|EVE-domain-containing-protein
MENYYLLKTEPSEYSYDDLEKEGRTVWNGVKNPLAQKFIKSMKPKDKVFIYHSGKEKAIVGLGEVISEPYLDENNLYVVDIKPLKRLKLLTLKEIKSITDFKDFYLVRMPRLSVMPVPENLVKLILEKSDGG
>NC_012438.1|WP_012673613.1|1170007_1170322_+|MTH1187-family-thiamine-binding-protein
MSFLVEFSMFPTDKGESVSQYVSRIIKMIDSSGVPYKLTPMGTVFETNTMEEALNIINQAYKQLEPDCNRVYTVIKMDIRKNAENRIEGKVKSVEEKLGKEVKK
>NC_012438.1|WP_012673954.1|1170318_1172973_+|AAA-family-ATPase
MIITKLTLKNFLAHDNTQVEFSPSGITAIIGENGSGKTSILEGIMFALFGKSSKGNQIDLIKWGRNKALVELEFIKNGTTYKIVRELDKKGRTVSSTALLYRIESGRQVLERQKNLKQELPKITGISEKTFLNSILIRQGEIEGFIKQKPADREKTIEEILDLHMYAKLLEKYADKRKNYEKQLEILKTEKVDKQSLEDQIKTITDQINQLETVLNQLTQEKQSLEQQLNQTEEKINQYSLLENEKRLLETKIDNIEQKIEEINKKIKEIEGLKQQLPELQEKVKQLQDIEKHYEKLKNLENLYIKLSHVEKDLEEIQKKIEFKQKFQPIYQDITQKQDQLKQISQEIIRLEKIKGEIEQLEKQLKEKQKDLATKKQKYDQIVKQLLHYYSKFQQLFLNPFMIDEHINQNRYKMENLSKELDKVKQEKADIEAEGKQLKEKLSNLSSIHGDCPTCGRPLEEHQKEELINEINKVLEEKRNKHKQLTQKQKEIEEELKKQKEIEQLLNQLKPIYDSIKEVEKEISTYESKIKAKQHQIKDLDLLKSQKEDIEKFILSHSQDFGYYQKILQENLEEIKQKLIEEQNMILKDIESIGLKVEPLQIKQEISEASNKIQQLKPFNDSYNQILPKLKEEDSLERQLQESENTKTQLENQLNDIEEKLKDLDIEKFKEEKEKIKAQIEEKNKEISEKNQQLGHLKGQKSILEDGLKKAEEQEERIEHLSGKVKKYYKVENAIQQIQKLLKQNAMYNLPKITEEIFNRFGFNQFINLKFSEKYDIVLTANTVSSSNVEVNIDALSGGQRVALSIALRLAIAKLLNEKADFLILDEPTIFLDDERKKELVDLFGELKESNFIKQLIITTHDEELEGWANVIYKVKDGSVELIS
>NC_012438.1|WP_012673455.1|1172974_1173916_-|flagellar-hook-protein
MRIADLIKYDNYIKNDQIRQNEIEKYTRQIATGIKLLSPSDDTVGTVSALRLKTINEDIERYGRNMDFVNTILDSAETQLNSIAAAGQEVRVEIVRLLNTGVLDKEDAKVLRDYFVNMKDYIIKQANFKIGDTALFGGVKTQTDPFAPDGTYQGETVETKVPTAPGVELNTTFNGRVYLGVNNDTNKMILTETIDKIVNIIDNAISGTGSLGDLNTATISVNGKNVKLLEAFDIGLNTVMQYRSVIGTQVKTIQDLKTINDQNKVFNKDLISKLEDVDVAEAITNLQKAQVAYQALISVFNQNRQLSLLDFFK
>NC_012438.1|WP_012674419.1|1173980_1175432_-|flagellar-hook-associated-protein-FlgK
MSLLGILSTAGQSLLTFQRGINSTNKNISNATTEGYNREVPVFQDFPRSGVFMNKIIRVFDRSLFNRSIELNQQLNSDNSFSEILSNIETMFNDTLGSGFSSDLNNFFNSINDMLIKPDDIAARSQFLANAQTLVGKIRSINDSLDNQKQDITLKVRDQVKQINQITDQLAKLNQTIKTKTLDIEANNEYLNERDRLIKQLSDLIDTKVVFNEDNTVNVFTAKGYGLVVGIQSTPLSFETDTNGNPVVKWNGVADITTEIQNGQLGGNLKGIKSINDQLNKLNDFTTVFATVFNKVHKKGYGLDGSTNLDFFTIDPSKSSTKIDASNIYLNITDPKKVALAQNSTYLNSDNTNGKDLLGLKNNIRVLYTNPSQPVLTPAEEAALQSSLNDSTNYTYIKDHTFAEFYNTKLVADISSTSSYIKQQQQNNKYLYDAITEKMKNIAGVNMDEELINLSKLQRSYQASARIITVTDELMQTILNLGK
>NC_012438.1|WP_012674201.1|1175500_1176385_+|ROK-family-protein
MSRFLGVDIGGTFLKVAFKEDDEIKTEKVAVKDIQKKDYFLRSLSQVIKKYNPHRIGIAIAGLVDKKTGLLTNSPNLKFLEGLNLKEFIEREFNVEVFVENDANVAAYGEYVYGNGKDSKVLVCLTLGTGLGGGLVIDGKIFSGVSGSAMEIGHITIEKDGFLCHCGRKGCLESYVSSYGLERLYCLISEDRKTSFDIINLAKQNDEKAVQTFEVFTDYLAIGIMSIAHIFNPDTVLLAGGIIENYPMVLTLTKSKVEKLVFPLPLRDLHIDTAKLGSWSGAYGALALAEIYSS
>NC_012438.1|WP_012674960.1|1176372_1176720_-|6-carboxytetrahydropterin-synthase
MPYIVRVKQKFNAAHFLTDYHGKPEPLHGHTWMVELYIKADKLDNGGMGYDFLEIKDLLKEILPDYKCMNDIYDFSPSAENVAKYIYDQVKKKYPTLVKVVVWETEEGGAEYYEE
>NC_012438.1|WP_012674814.1|1176971_1178330_+|phosphomethylpyrimidine-synthase-ThiC
MRFYVSKRRGQKNVTQMHYARQGIITEEMEYVAKREDLPVELVREEVARGRMVIPANINHINLEPMAIGIAAKCKVNANIGNSAITSDIETELEKLRVALKYGADTVMDLSTGGNLNEIRKAIIENSPVPVGTVPIYQALQEVRSIEKLTEQDILDIIELQAQQGVDYMTIHAGLLREFLPLVNHRLMGIVSRGGSIIAQWMIVHGKQNPLYTNFDKICEIFKKYDVTFSLGDGLRPGCINDASDEAQFAELKVLGELTKKAWEHDVQVMVEGPGHVPMDQIEMNIKKQMELCHEAPFYVLGPLVTDIAPGYDHIASAIGAAMAGWYGAAMLCYVTPKEHLGLPNPEDVKQGLIAYKIAAHAADLARHRKGAKEWDDEMSRARYNFDWERQFELAIDPETARKYHDETLPQEGFKSAKFCSMCGPSFCAYKISQNVQEAVKENEVEFLPIIK

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Crispr_ID: NC_012438_15

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_15

1299664-1301093

Orphan

Consensus_repeat	Method
GTTTTTCTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CRT

21 spacers

The CRISPR arrays of NC_012438_15

>merge|NC_012438|15|1299664-1301093|PILER-CR,CRISPRCasFinder,CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAGTTTCTTCATCTTTAAGGTAAAAATTCAAACCTGTCGTTTTTCTCCCGACTATGAGGGAATTGAAGCTTCCTTTTTAAACGGTTTGATTCCATAGATTTCATCGTTTTTCTCCCGACTATGAGGGAATTGAAGACATCCTGAGTGGATTCTGTTGTATCCTTTATCATGGTTTTTCTCCCGACTATGAGGGAATTGAAGCTTTTATTTTTTCATCTTTAGTAACTATAAACACGCCGTTTTTCTCCCGACTATGAGGGAATTGAAGTAACCTTTTTCATAAAAAGATATTGTTTTTATATCTGTTTTTCTCCCGACTATGAGGGAATTGAAGCCATAATCGTAAGACAGAAAAATATTTTCTGTCCCTACGTTTTTCTCCCGACTATGAGGGAATTGAAGTTCTTTTGAATATATATACTTCAGTTTGAAGTCAAAGTTTTTCTCCCGACTATGAGGGAATTGAAGTTTTTCTGATTTTGTTATAATGAAGGAGCCAGTATATGTTTTTCTCCCGACTATGAGGGAATTGAAGTTGTTTGTTTTGTCAGATAGATTGCTAACAACTTCTCGTTTTTCTCCCGACTATGAGGGAATTGAAGTTTGACTCCAGTAAACGGCACTATAGAGAGTACAAAGTTTTTCTCCCGACTATGAGGGAATTGAAGGCAGTTGCATACATCAATTCCGTCACTATCTTGTGGGTTTTTCTCCCGACTATGAGGGAATTGAAGAAAAGATTGCTTGATAGGAACCATGTTTTTTTAATTGTTTTTCTCCCGACTATGAGGGAATTGAAGCGTTTTTTGGATCGCAATGAGTTACATACTCAACGGGTTTTTCTCCCGACTATGAGGGAATTGAAGATCACCTCCTTTATTAAATAATTTCTACTGCTGGTTAGTTTTTCTCCCGACTATGAGGGAATTGAAGACTTTCCTATATACACTCCCCCGATTATTGCTTCTTCTGTTTTTCTCCCGACTATGAGGGAATTGAAGCACTATTGTATTTTTAGAATCACAATTTGTACTTAGGGGTTTTTCTCCCGACTATGAGGGAATTGAAGGCAAATGCTGGCATGAACGCTGTCAAGGCCAAGCCCTTGTTTTTCTCCCGACTATGAGGGAATTGAAGTATTTCCCATTTGGAAATAGATGGGTAGATAAATTCGTTTTTCTCCCGACTATGAGGGAATTGAAGTGACGAAAACAATGTTGTTATTCGCGAGAACGAACAGTTTTTCTCCCGACTATGAGGGAATTGAAGTATACTCGAATTGGGTGGTTGGGGTCCTCCAGTTCCGTTTTTCTCCCGACTATGAGGGAATTGAAGCTTCATACATGATACTACCTCCTATAAATATAAAAATTGTTTTTCTCCCGACTATGAGGGAATTTTTT

>NC_012438|15|13|1299664-1301025|PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTCTTCATCTTTAAGGTAAAAATTCAAACCTGTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCCTTTTTAAACGGTTTGATTCCATAGATTTCATC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACATCCTGAGTGGATTCTGTTGTATCCTTTATCATG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTTATTTTTTCATCTTTAGTAACTATAAACACGCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TAACCTTTTTCATAAAAAGATATTGTTTTTATATCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CCATAATCGTAAGACAGAAAAATATTTTCTGTCCCTAC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTTTTGAATATATATACTTCAGTTTGAAGTCAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTTTCTGATTTTGTTATAATGAAGGAGCCAGTATAT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTGTTTGTTTTGTCAGATAGATTGCTAACAACTTCTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTGACTCCAGTAAACGGCACTATAGAGAGTACAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTTGCATACATCAATTCCGTCACTATCTTGTGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAGATTGCTTGATAGGAACCATGTTTTTTTAATT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CGTTTTTTGGATCGCAATGAGTTACATACTCAACGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ATCACCTCCTTTATTAAATAATTTCTACTGCTGGTTA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACTTTCCTATATACACTCCCCCGATTATTGCTTCTTCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CACTATTGTATTTTTAGAATCACAATTTGTACTTAGGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAAATGCTGGCATGAACGCTGTCAAGGCCAAGCCCTT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATTTCCCATTTGGAAATAGATGGGTAGATAAATTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TGACGAAAACAATGTTGTTATTCGCGAGAACGAACA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATACTCGAATTGGGTGGTTGGGGTCCTCCAGTTCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG

>NC_012438|15|13|1299664-1301093|CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTCTTCATCTTTAAGGTAAAAATTCAAACCTGTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCCTTTTTAAACGGTTTGATTCCATAGATTTCATC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACATCCTGAGTGGATTCTGTTGTATCCTTTATCATG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTTATTTTTTCATCTTTAGTAACTATAAACACGCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TAACCTTTTTCATAAAAAGATATTGTTTTTATATCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CCATAATCGTAAGACAGAAAAATATTTTCTGTCCCTAC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTTTTGAATATATATACTTCAGTTTGAAGTCAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTTTCTGATTTTGTTATAATGAAGGAGCCAGTATAT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTGTTTGTTTTGTCAGATAGATTGCTAACAACTTCTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTGACTCCAGTAAACGGCACTATAGAGAGTACAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTTGCATACATCAATTCCGTCACTATCTTGTGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAGATTGCTTGATAGGAACCATGTTTTTTTAATT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CGTTTTTTGGATCGCAATGAGTTACATACTCAACGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ATCACCTCCTTTATTAAATAATTTCTACTGCTGGTTA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACTTTCCTATATACACTCCCCCGATTATTGCTTCTTCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CACTATTGTATTTTTAGAATCACAATTTGTACTTAGGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAAATGCTGGCATGAACGCTGTCAAGGCCAAGCCCTT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATTTCCCATTTGGAAATAGATGGGTAGATAAATTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TGACGAAAACAATGTTGTTATTCGCGAGAACGAACA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATACTCGAATTGGGTGGTTGGGGTCCTCCAGTTCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCATACATGATACTACCTCCTATAAATATAAAAATT
GTTTTTCTCCCGACTATGAGGGAATTTTTT

>NC_012438|15|12|1299664-1301093|CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTCTTCATCTTTAAGGTAAAAATTCAAACCTGTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCCTTTTTAAACGGTTTGATTCCATAGATTTCATC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACATCCTGAGTGGATTCTGTTGTATCCTTTATCATG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTTTATTTTTTCATCTTTAGTAACTATAAACACGCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TAACCTTTTTCATAAAAAGATATTGTTTTTATATCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CCATAATCGTAAGACAGAAAAATATTTTCTGTCCCTAC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTCTTTTGAATATATATACTTCAGTTTGAAGTCAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTTTCTGATTTTGTTATAATGAAGGAGCCAGTATAT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTGTTTGTTTTGTCAGATAGATTGCTAACAACTTCTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TTTGACTCCAGTAAACGGCACTATAGAGAGTACAAA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAGTTGCATACATCAATTCCGTCACTATCTTGTGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	AAAAGATTGCTTGATAGGAACCATGTTTTTTTAATT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CGTTTTTTGGATCGCAATGAGTTACATACTCAACGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ATCACCTCCTTTATTAAATAATTTCTACTGCTGGTTA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	ACTTTCCTATATACACTCCCCCGATTATTGCTTCTTCT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CACTATTGTATTTTTAGAATCACAATTTGTACTTAGGG
GTTTTTCTCCCGACTATGAGGGAATTGAAG	GCAAATGCTGGCATGAACGCTGTCAAGGCCAAGCCCTT
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATTTCCCATTTGGAAATAGATGGGTAGATAAATTC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TGACGAAAACAATGTTGTTATTCGCGAGAACGAACA
GTTTTTCTCCCGACTATGAGGGAATTGAAG	TATACTCGAATTGGGTGGTTGGGGTCCTCCAGTTCC
GTTTTTCTCCCGACTATGAGGGAATTGAAG	CTTCATACATGATACTACCTCCTATAAATATAAAAATT
GTTTTTCTCCCGACTATGAGGGAATTTTTT

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041676138.1\|1289132_1289759_-\|phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|224837
NC_012438.1\|WP_012673997.1\|1306775_1309991_-\|molybdopterin-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|239158
NC_012438.1\|WP_012674980.1\|1292499_1293312_-\|50S-ribosomal-protein-L11-methyltransferase	unknown	unknown	gnl\|CDD\|234786
NC_012438.1\|WP_012673709.1\|1291832_1292537_-\|deoxyribose-phosphate-aldolase	unknown	unknown	gnl\|CDD\|234784
NC_012438.1\|WP_012673724.1\|1298359_1299385_+\|undecaprenyldiphospho-muramoylpentapeptide-beta-N-acetylglucosaminyltransferase	unknown	unknown	gnl\|CDD\|234825
NC_012438.1\|WP_012674431.1\|1289761_1291867_-\|NAD-dependent-DNA-ligase-LigA	unknown	unknown	gnl\|CDD\|236137
NC_012438.1\|WP_012675026.1\|1310005_1310887_-\|polysulfide-reductase-NrfD	unknown	unknown	gnl\|CDD\|225838
NC_012438.1\|WP_041676142.1\|1304320_1305028_+\|methyltransferase-domain-containing-protein	unknown	unknown	gnl\|CDD\|273953
NC_012438.1\|WP_012674364.1\|1303689_1304328_+\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|273783
NC_012438.1\|WP_012674846.1\|1302566_1302959_+\|PaaI-family-thioesterase	unknown	unknown	gnl\|CDD\|179847
NC_012438.1\|WP_012674535.1\|1297262_1298363_+\|putative-lipid-II-flippase-FtsW	unknown	unknown	gnl\|CDD\|274232
NC_012438.1\|WP_012673850.1\|1305011_1306094_-\|4Fe-4S-binding-protein	unknown	unknown	gnl\|CDD\|225131
NC_012438.1\|WP_012673866.1\|1293308_1293737_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133394
NC_012438.1\|WP_148205419.1\|1301983_1302565_+\|threonylcarbamoyl-AMP-synthase	unknown	unknown	gnl\|CDD\|376519
NC_012438.1\|WP_012675099.1\|1293741_1294887_-\|molecular-chaperone-DnaJ	unknown	unknown	gnl\|CDD\|237661
NC_012438.1\|WP_012673570.1\|1295995_1297270_+\|UDP-N-acetylmuramoyl-L-alanine--D-glutamate-ligase	unknown	unknown	gnl\|CDD\|223842
NC_012438.1\|WP_012674461.1\|1301205_1301994_+\|3-methyl-2-oxobutanoate-hydroxymethyltransferase	unknown	unknown	gnl\|CDD\|234723
NC_012438.1\|WP_012674122.1\|1295058_1295988_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237372
NC_012438.1\|WP_012674891.1\|1306083_1306728_-\|molecular-chaperone-TorD-family-protein	unknown	unknown	gnl\|CDD\|376858
NC_012438.1\|WP_012673634.1\|1302955_1303693_+\|6-carboxyhexanoate--CoA-ligase	unknown	unknown	gnl\|CDD\|179280

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_041676138.1\|1289132_1289759_-\|phosphoribosyltransferase	gnl\|CDD\|224837	COG1926, COG1926, Predicted phosphoribosyltransferases [General function prediction only].	3.39503e-65
NC_012438.1\|WP_012673997.1\|1306775_1309991_-\|molybdopterin-dependent-oxidoreductase	gnl\|CDD\|239158	cd02757, MopB_Arsenate-R, This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.	5.43283e-84
NC_012438.1\|WP_012674980.1\|1292499_1293312_-\|50S-ribosomal-protein-L11-methyltransferase	gnl\|CDD\|234786	PRK00517, prmA, 50S ribosomal protein L11 methyltransferase.	6.94573e-49
NC_012438.1\|WP_012673709.1\|1291832_1292537_-\|deoxyribose-phosphate-aldolase	gnl\|CDD\|234784	PRK00507, PRK00507, deoxyribose-phosphate aldolase; Provisional.	1.57189e-108
NC_012438.1\|WP_012673724.1\|1298359_1299385_+\|undecaprenyldiphospho-muramoylpentapeptide-beta-N-acetylglucosaminyltransferase	gnl\|CDD\|234825	PRK00726, murG, undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional.	5.45829e-126
NC_012438.1\|WP_012674431.1\|1289761_1291867_-\|NAD-dependent-DNA-ligase-LigA	gnl\|CDD\|236137	PRK07956, ligA, NAD-dependent DNA ligase LigA; Validated.	0
NC_012438.1\|WP_012675026.1\|1310005_1310887_-\|polysulfide-reductase-NrfD	gnl\|CDD\|225838	COG3301, NrfD, Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism].	1.51589e-09
NC_012438.1\|WP_041676142.1\|1304320_1305028_+\|methyltransferase-domain-containing-protein	gnl\|CDD\|273953	TIGR02072, Malonyl-_O-methyltransferase, malonyl-acyl carrier protein O-methyltransferase BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, carries out an enzymatic step prior to the formation of pimeloyl-CoA, namely O-methylation of the malonyl group preferentially while on acyl carrier protein. The enzyme is recognizable as a methyltransferase by homology. [Biosynthesis of cofactors, prosthetic groups, and carriers, Biotin].	5.06674e-32
NC_012438.1\|WP_012674364.1\|1303689_1304328_+\|alpha/beta-hydrolase	gnl\|CDD\|273783	TIGR01738, Pimeloyl-_methyl_ester_esterase, pimelyl-[acyl-carrier protein] methyl ester esterase. This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown, but is proposed in ref 2. This enzyme belongs to the alpha/beta hydrolase fold family (pfam00561). Members of this family are restricted to the Proteobacteria. [Biosynthesis of cofactors, prosthetic groups, and carriers, Biotin].	4.37324e-21
NC_012438.1\|WP_012674846.1\|1302566_1302959_+\|PaaI-family-thioesterase	gnl\|CDD\|179847	PRK04424, PRK04424, transcription factor FapR.	1.00138e-11
NC_012438.1\|WP_012674535.1\|1297262_1298363_+\|putative-lipid-II-flippase-FtsW	gnl\|CDD\|274232	TIGR02614, Putative_lipid_II_flippase_FtsW, cell division protein FtsW. This family consists of FtsW, an integral membrane protein with ten transmembrane segments. In general, it is one of two paralogs involved in peptidoglycan biosynthesis, the other being RodA, and is essential for cell division. All members of the seed alignment for this model are encoded in operons for the biosynthesis of UDP-N-acetylmuramoyl-pentapeptide, a precursor of murein (peptidoglycan). The FtsW designation is not used in endospore-forming bacterial (e.g. Bacillus subtilis), where the member of this family is designated SpoVE and three or more RodA/FtsW/SpoVE family paralogs are present. SpoVE acts in spore cortex formation and is dispensible for growth. Biological rolls for FtsW in cell division include recruitment of penicillin-binding protein 3 to the division site. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan, Cellular processes, Cell division].	5.52058e-99
NC_012438.1\|WP_012673850.1\|1305011_1306094_-\|4Fe-4S-binding-protein	gnl\|CDD\|225131	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion].	7.61661e-08
NC_012438.1\|WP_012673866.1\|1293308_1293737_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|133394	cd04766, HTH_HspR, Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins 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. A typical MerR regulator is comprised of 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 dissimilar C-terminal domains bind specific coactivator molecules.	1.25562e-37
NC_012438.1\|WP_148205419.1\|1301983_1302565_+\|threonylcarbamoyl-AMP-synthase	gnl\|CDD\|376519	pfam01300, Sua5_yciO_yrdC, Telomere recombination. This domain has been shown to bind preferentially to dsRNA. The domain is found in SUA5 as well as HypF and YrdC. It has also been shown to be required for telomere recombniation in yeast.	3.9679e-52
NC_012438.1\|WP_012675099.1\|1293741_1294887_-\|molecular-chaperone-DnaJ	gnl\|CDD\|237661	PRK14291, PRK14291, chaperone protein DnaJ; Provisional.	0
NC_012438.1\|WP_012673570.1\|1295995_1297270_+\|UDP-N-acetylmuramoyl-L-alanine--D-glutamate-ligase	gnl\|CDD\|223842	COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane].	2.6334e-143
NC_012438.1\|WP_012674461.1\|1301205_1301994_+\|3-methyl-2-oxobutanoate-hydroxymethyltransferase	gnl\|CDD\|234723	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed.	6.46315e-173
NC_012438.1\|WP_012674122.1\|1295058_1295988_+\|hypothetical-protein	gnl\|CDD\|237372	PRK13386, fliH, flagellar assembly protein H; Provisional.	0.000177079
NC_012438.1\|WP_012674891.1\|1306083_1306728_-\|molecular-chaperone-TorD-family-protein	gnl\|CDD\|376858	pfam02613, Nitrate_red_del, Nitrate reductase delta subunit. This family is the delta subunit of the nitrate reductase enzyme, The delta subunit is not part of the nitrate reductase enzyme but is most likely needed for assembly of the multi-subunit enzyme complex. In the absence of the delta subunit the core alpha beta enzyme complex is unstable. The delta subunit is essential for enzyme activity in vivo and in vitro. The nitrate reductase enzyme, EC:1.7.99.4 catalyze the conversion of nitrite to nitrate via the reduction of an acceptor. The nitrate reductase enzyme is composed of three subunits. Nitrate is the most widely used alternative electron acceptor after oxygen. This family also now contains the family TorD, a family of cytoplasmic chaperone proteins; like many prokaryotic molybdoenzymes, the TMAO reductase (TorA) of Escherichia coli requires the insertion of a bis(molybdopterin guanine dinucleotide) molybdenum (bis(MGD)Mo) cofactor in its catalytic site to be active and translocated to the periplasm. The TorD chaperone increases apoTorA activation up to four-fold, allowing maturation of most of the apoprotein. Therefore TorD is involved in the first step of TorA maturation to make it competent to receive the cofactor.	5.81544e-17
NC_012438.1\|WP_012673634.1\|1302955_1303693_+\|6-carboxyhexanoate--CoA-ligase	gnl\|CDD\|179280	PRK01322, PRK01322, 6-carboxyhexanoate--CoA ligase; Provisional.	6.62873e-115

>NC_012438.1|WP_012673724.1|1298359_1299385_+|undecaprenyldiphospho-muramoylpentapeptide-beta-N-acetylglucosaminyltransferase
MKTVFISGGGTGGHYYPALAVAQALKEKGYKVVYIGTDKGIEAKKGFPYADEVILFEMEAVRGRGLLGKVKGVYSLLKTTFKVKKVIEKENPIFSVCFGGYTSFPLGVGSFLTKTPLYIHEQNSIPSYTNRLLSLFAKKIFITFEYTKKFFNPTKTFLTGMPLRKAIVEEAKKYIYTPKDKKTVLVVGGSQGAKKLSQITVNLAKTLPEIEFILIKGKWEVDIPSLNNLTVYDYYENMEKLYKQADIVVSRSGSGTVNEILAFGKYAIFVPYPYAASNHQFYNVKWLYDLGLCEIVEEKDLTEEILKEKINQSLNKNLLKLHQEIKKYSILNSVDKIVESF
>NC_012438.1|WP_012674535.1|1297262_1298363_+|putative-lipid-II-flippase-FtsW
MVRSFYIDWPLFISFALLVIIGLVAVYSATYTATSDPFYYLKRHIFALIIATVGLIVAFSIPIDFWKKNAYFIFIISVILLLVVLILPSDGTGTKRWINLGLFKFQPSEFVKFATVLFIAKYLSRKEDRLESFEPVVVIYTIVGLVGLLVAVEPHKGAALFLFILTGLLLFSSPLKVRYVLTPVFFILPFFMVFFILKSNYAFSRLKGWLNPDPSSKEGYQPYQAMLSFAKGGPFGEGIGMGTQKLNYLPEIHTDYIFSLIGEETGLIGSSLVMFLFFVILYRGVKISLEKEDLFTQVLGLGVIYIITLNSVFHMFVNLNIFPSTGFTLPFISYGGSSLIMSFIYIGILLRISKEPVKVNFVKRAK
>NC_012438.1|WP_012673570.1|1295995_1297270_+|UDP-N-acetylmuramoyl-L-alanine--D-glutamate-ligase
MILIYGKGKTGTAVKNFLDKKGIKNLIIDDEDRLPDINPQLIIVSPGIPFYHRIYKFAKKNKIPIISDVEYGYRFFKGDVIGITGTDGKTTTTTLVYEIFKNVSGKSVFVGGNYGVPFIETAGKNDVAILELSSFQLYSTKTFKPKIAVILNISKDHLDWHKKMKHYILSKFKIFKNQTEEDYLILNYDDNCLKQIKAKSQIYYFSLNQLPQDKKGIYLKNIEKSGEYILTLQDKEKIDIKVKTSLVGLHNLQNIMASLVVSYLYGLDLDKVLKVIQEFKPLSHRIEFVSSINGVSFYNDSKATTVQAVEKAIDSFDKNVVLILGGINKGGDFSVLKDKLKQKVKKAIIIGRDKNQIKSMIEEYTQVELADSLEEAVIKSYNTAEKGDTVILSPGCASFDMFKSYADRGNQFINIVKNLENQNG
>NC_012438.1|WP_012674122.1|1295058_1295988_+|hypothetical-protein
MEVKIKTDLLLKHLFKNPATKLIEIILGKKVNWQLLQDTDLKIVKTREADLVVKLEDNTILHIEIQSTNDPSMPYRMFEYFYLITDKYKPKDLIQVCIYIGKEPLKMSDKIQFSDWTYRYRLIDIKDIPCKELVASPNITDKLLAGLCKIEDPKFYVENVIKEIKNANPKDRKELFTLFLEISKIRNNIEEEIRSYITQEDFEMPITIEWTWEELESYPIIGEALKIGKEKFIKEGIEKGIQEGLKQGIQQGIQQGIQKGLKDSIIEILELKFGELPEEIKAKINSTDDIEALKEMRKKAILIQSLKDF
>NC_012438.1|WP_012675099.1|1293741_1294887_-|molecular-chaperone-DnaJ
MAEKKDYYEILGVSRNATQDEIKKAYRKLARQYHPDLNPNNKKEAEEKFKEITEAYQVLSDPEKRKIYDQFGHAGLSGSYQDFSKQYRYQDIGGINIDDLLEDFDDIFGFGFGKRRSSRQRRQTYYQPENGKDIYQTVTISLEDAYHGTTLELEVPRYVVCEACGGTGEKAGSEARICPTCGGSGEVYQNLGGFLRLSQTCPTCGGKGVLQEHCEVCNGRGLVIKKEIVKVRVPPGVDNGSKLRVPGKGHSGRFGGLPGDLWIVINVKPHYLFERKGDNLYLKANISVAEAIEGTTLEVPLIDGKTEKVEIRPGTQPGDKIRLHGKGMPRLKQSGYGDLVVEINVVIPSVKDLSKDAKKCVSKLKEEQKITNRFYKSQVEV
>NC_012438.1|WP_012673866.1|1293308_1293737_-|helix-turn-helix-transcriptional-regulator
MKDRRKEPLYMIGTVAKMYNIHPQTLRLYEKEGLIVPSRTKGKTRMYSEEDLERLEFILFLTRELGVNLAGVDAILRMKQQIEELQNQIQLLLTKIQEEIREKYINDQIQQQNALVQLPKVEIMKIEEYIYTKYNKKKKGDK
>NC_012438.1|WP_012674980.1|1292499_1293312_-|50S-ribosomal-protein-L11-methyltransferase
MKKYICEIPSNLFEIFLVELNGYGVEILNKDENITVFAIYDYDKDAINNIFEDLGSGRIVLEEDIKEEDWEEKWKENFKPIEIPPFIVIPEWEIYQGNDLIPIKLKIAMAFGTGLHPSTQIILSLIPKYISQGDKVIDIGCGTGILSIASAKLGANVDAIDIEKQAVEECKVNSWENQVKVNCYQASIEDIKDSYNIVLSNLQMEIFDKYFDRLKDIFKKYWLISGIFKDEKDKILKMAENSGLEVVEMKSKPEEGKPDDLWYGFVIKHK
>NC_012438.1|WP_012673709.1|1291832_1292537_-|deoxyribose-phosphate-aldolase
MTYGTDLLSNINRYIDHSVLKPYTTYQEVENQCVKALEYQFASICVNPFHVKICSQILKNSTVAVCSVVGFPLGLNTKDIKIKEALQSVKEGSQELDIVWNISAFKSKDYRYVEEELKEIIKITPKIIHKVIVETAYLTQEEKKIALDIVINSGAEYIKTSTGFADKGADLQDILMWRELSQGKIKIKASGGIKDLKTAVEFIKAGCDRIGTSSGIEIIQEVKDVLRGNPKETY
>NC_012438.1|WP_012674431.1|1289761_1291867_-|NAD-dependent-DNA-ligase-LigA
MYSEETQRKLIEKTREFLNLDIKSIDRKKAESIIEDLREVIRFHDWRYYVLAQPVISDYEYDKLFKLLKDIESKYPDLITPDSPTQRVPSEITKVFPQVKHLTPMLSLDNSYNEADLRDFDRRVRELTGLEKIEYAVEPKFDGAGISLIYEKDLFKRGATRGDGEVGEDITNNLKVIKSIPLSAKFSSYGIDKVEIRGEVLIRKDIFKRINEQRLEEGLPLFANPRNAAAGSIRLQDPKEVAKRGLEAFVYQITYAEKDGKNLLGTVLKKHSDNIKMLHLLGFKTPYEVLKVCNGIDEVIDYCREWERKRDNYPYEIDGMVIKVNDISLYEKLGFTSHHPRWAIAYKFKARQATTKIIDVVFQVGRTGAITPVAKLQPVEIGGVIVSSVSLFNEDFIREKDIRIGDTVLVERAGDVIPYVVMVIKEARTGNEKPIEFPKNCPSCGSPLVKPLGEAVYRCININCPAQVIERIIHFASKDAMDIKGLSEATVKKFYKLGLLKSIPDIYRLDFRIIKNIQGFGEKSVNNLKQAIEESKNRPLYRLIYGLGIRYVGEVTAKTLASAVNCLEDLKNFTITDLMKLPDIGDKVATEIYNFFHNEQNLKMIQQLKELGVNVCNPKEEKRGKLAGLNFVFTGALKCCSREKAKEIVESLGGNVLDTVSKKVHYLVVGEEPGSKLQKAQKIPTIKIINEEEFLKMIGQQ
>NC_012438.1|WP_041676138.1|1289132_1289759_-|phosphoribosyltransferase
MFKDREEAGKLLGEFLKSFNFDKENSIILAIPRGGIPVAYQVSKALNIPFSLVIVKKLAPLSEPEAAFGAIAPDGTIYIDEHLMRYMGVSEEELEIVKEKALSEIKRRIKDFLKNKEPDVNGKDVIIVDDGIATGYTAMVAAMYVKKKGANNVYLAVPVCPADSISKVKKVFDDVFCLHPVETPFFAVGSYYQDFHQLTDEEMYKFEF
>NC_012438.1|WP_012674461.1|1301205_1301994_+|3-methyl-2-oxobutanoate-hydroxymethyltransferase
MKDITQFLKAKETGQKITMVSTYDYWSAKLCEEAGIDAILVGDSLGMVIQGNNSTLPVSLEEMIYHTKAVRKGAPNTFIVVDMPFMSYHTSVEEAVKNAGRVIKETGANAVKLEGAGIVLEITKKLVSIGIPVMGHLGLTPQFINLFGGYKVQGKTIDSRKRILEDAKALEEAGVFSIVLEAVPSDLAKTITDSLKIPTIGIGAGKDTDGQILVFHDLIGVFEKTPKFVKRYLEAGKLIKQALSSYNQEVKDGKFPTEEYSY
>NC_012438.1|WP_148205419.1|1301983_1302565_+|threonylcarbamoyl-AMP-synthase
MHIKISKNLFDAIPYIKEGKLVVAKTDTIYGILADALNKEAVEKIYKIKGRPEDKPFIILIPSSHDLKKFNVKPDPQGEKILNIKGITVIFDIEDPTGEFYYLHRGKNSLAFRIPDDPVFLSFLKELGRPVVAPSANPSDLQPAEDIEKAIEYFKDSIDLYIDSGKVEKNVPSTIVKVENGKIKVIREGSKRL
>NC_012438.1|WP_012674846.1|1302566_1302959_+|PaaI-family-thioesterase
MQIKTHLKIDNSLSGYPLSIEEGKTATVKLITDQRMVADEKGLIHGGFIFSAADYCAMITVNHPNVVLGSSEVKFLKPLKLGQNAIFQSQVLSQEGKKVMVKVVGYIEDTNGQFFEGMFKCYILDKHVLE
>NC_012438.1|WP_012673634.1|1302955_1303693_+|6-carboxyhexanoate--CoA-ligase
MKEYFSVKMRASLQGRHVSGAERIVLKEDLPTVISQLSQRPKEYDSLNIKVEKINDLNYIEKSLNVKTINVKDWIEGNKVAVEILQNQGVDKKIAEKYINLIHQGAVNGENMRGAMIVNLSGERVEKDKTRGIRTVNIDFEDRKAITELLKEKGYTERTVDALALATKTLNHPDIVAEYCISDDPSYTTGYVATKTTYYRINPLKQLSNEKGGRIYFVKDTANIEDIYQYLESEAFLIKQLGDLQ
>NC_012438.1|WP_012674364.1|1303689_1304328_+|alpha/beta-hydrolase
MRKIFIHGWGFSKNIWSNYFYLDDAEFLSLPFHGGSREYTSIESFADYLSKSINQPTTLIGWSLGASVSVLTALKNKNVKKLILIGFSPKFEDEKLGSPKASIKAFMLNLKKDFEKTVRNFRVSAVEKDPLCPVPEKEGSIALLNDFISLDLREALESVECETHILHGINDKIVNKEAAFFTNQKIKNSQLYLFDSHHAPFLDRDVLEIVYQ
>NC_012438.1|WP_041676142.1|1304320_1305028_+|methyltransferase-domain-containing-protein
MSKSRVKTSFTKAIKSYENHIYVQKQTAVKLSELSKDLEGFGIDLGCGTGILSTLLDKNVIGLDISFSMAKSYKDKNLKVVVGDIENIPFKANTFDFAVSNFALHWTNLEKSFKEISRVLKKEGKFLFCMPIENSFKVVEEILGEKNFDFVSVETLLKMLSYNFDIQYLETKEYNLEFKSGLDLLLHLHLTGSSVGKVGSTVGEKRKIYKKFSSYKKPLTLNFNVVFIKAVNLQS
>NC_012438.1|WP_012673850.1|1305011_1306094_-|4Fe-4S-binding-protein
MSVRLSFDVYSCVRVYYRYADCRRCVDVCPVENTITLENDKIKVNYENCINCGACVGNCPTESYKIQGFDLPEFYFKFIEDDNNLISCKLNVPCLSALDENYLSALCIEKERDIILDIKHCQNCSIGKQIDLINKNVEKANYILDAAGVDYRVKTQEVGYEKPEIKENKRRSFLKMFVKQTASLAFWAVADKLPPIDESQTGDREFKNIVSEKVYPVKRDILINALSKVDTEDKYFEVDKIEFSSDKWIDSSCTNCSVCYNVCPTGALTSSDSKLKVLFSPSLCIKCRICHDVCPEKCIHLEEKLYISDFVSKKYKVLAEHVMIPCSECLVPFSYKGDTTVCPRCRQLEDELRELLKIGD
>NC_012438.1|WP_012674891.1|1306083_1306728_-|molecular-chaperone-TorD-family-protein
MDEKITENQARINMYAFLSRLLVEEVDEELLDKIKYTPELLDLFPNTKDWEVFKTKTTKQLIDEDLNVDYTTVFILNAYPYQSVFMNDEGHINPTPTNPTLQFYLENGYEIDLNKTRVLSPDHIAIELEFMITLIKEQLTAYSINNEEEEKKYLQLQKRFMEEHLLQWAPIYLLAARDMAETPFYYDVCQTTLEFIMSDYEYILQQLEELENVS
>NC_012438.1|WP_012673997.1|1306775_1309991_-|molybdopterin-dependent-oxidoreductase
MIKTTRRNFLKGAAASIGAVALTKGVFEKVEADNKVANNQELTFEPKHLDYYPPFEKWNDWKEPAGDYWKIHGGALRDGVKLINYMIVPTVCNNCEAACGLTAWIDKDTLTVRKFMGNPFHSGSRGRNCAKGYAALSQMYDPDRIPFPLKRAPGSKRGENKWVRTTWEEALETIGKRMREVLLKGDEISKKQIIYQVGRPNENGFHVKRVVWSWGVDGRNSHTNICSSNGRFGNIVTVGDDRTSPDFANSRLILLVSSHAADAGHYYQQHAGYIADARAKGAKLVVIDPRLSNSAGMADLWIPAWPGTEAAINLAMISRIVKEEKFNKEFVKRWFNWKQFIEDKDYLNFLKEKGFLTEVPSGNSFEDFVAVLKDLYKDYTFEWAAQEAKIPVSMLEKLYELILWAGDRITQYHWRAVAAGNRGGWMGAGRTGTILMAFMGAIGNVGGVGWYKWHTISIGDKGGSACMADTPEPVKAWNELEWPPEWPLSAYELSYLLPHLVMDDEWRNKWKEKGLKIPDKVEVWFSRIYNPVWINPDGFRWVEALKDENRFGLTVYLSPIWSETAFYCDYILPMGLAGERHDQHSEPTKPEKWTGFRQPVLRVALQKMGWKPNDPAKATLEAHKKVGLGEIWEEDEFFVNLAFAIDPDGSLGIRKYWESKQNPGKPVTMEEYYNAAFSTLPKLSEVCQQLGITPYEYMRDRGAWTEATDVYNVHEKPLPYDPEKKAYQYDGKWIPENEVKIENDIAYHVEEGGKKHKIGIVKDGKIVNGFKTPSGLIEFYSPTLKEWKWPEYAIPIYPRNAEERKQMIHIVSQVHHDYIKEENAFVLNPIYRLPYLIHTRSINSKWLMEIGQNHNPLWIYEKDAKRLGIKRGDAVKVRVVDTLTGIETGYFVAMAMPTQATRPGVVACSHHNGRWRLVNEVKVDGFKHELGVMRMGSVLVDIQQKGNQFFMRTKEGVKPFKSWQFPEFNKDTEQIWWKGTTGVFQNAVFPANPDPLSGMQCWHKKVLIEKAGPEDKIGDVFVDINKTWEVYKAWRDQLTRPNYQPGGLRRPKWMPRPWFPIDDEYWKFPSA
>NC_012438.1|WP_012675026.1|1310005_1310887_-|polysulfide-reductase-NrfD
MLGAEVTFDVALPKVVWGWLVSTNMWAKSIATGSFLLGLYFIKKYPEKDAFFRKWVPILGLIFIGITLLVTVLDLHHMFRFWKIFLFAHFTSAVTLGAWVVSGFVIVLLISFWSWVTGNKKLFDKVMLPGFVLAFFSTIYTAGIMGESTARELWVFPAEMIQMLLSATLAGSAAYLLLMTIYKVEMEEVKRELGYILIGSAFLSGMMYLGEILFARMHSEFSHRAVEILTFGSLAPMFWLGIFLTFIIPIILVGIANEKKKYEYALLGSISALVGLWLVKHSWLLAPQMLPLS

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Crispr_ID: NC_012438_16

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_16

1493362-1494643

TypeIII

Consensus_repeat	Method
GTTTTTTCCCGACTATGAGGGAATTGAAG	PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAG	CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAG	CRT

19 spacers

cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7

The CRISPR arrays of NC_012438_16

>merge|NC_012438|16|1493362-1494643|PILER-CR,CRISPRCasFinder,CRT
GTTTTTTCCCGACTATGAGGGAATTGAAGGATTCGATGTGATTCATTAATAATAAGTACTTAGCTGTTTTTTCCCGACTATGAGGGAATTGAAGGGATAATAAGGAAAAATTTAATAATCTTATAAAGGGGGTTTTTTCCCGACTATGAGGGAATTGAAGCTGGAATCAAAACATTCCACATCCCTGTCTCACATTGTTTTTTCCCGACTATGAGGGAATTGAAGTTGATATTCTATACTAAAATCACTTGTTGGTATTCGGTTTTTTCCCGACTATGAGGGAATTGAAGTGGGTGCTGGAAGGCTAGAAGAAGACAGCTTATCTTGTTTTTTCCCGACTATGAGGGAATTGAAGATCTCAAGGCCCGCAGCAATTTCTAAATCTTGAATATCGTTTTTTCCCGACTATGAGGGAATTGAAGATTATCTAACTTATATAAGTGGAAAATGTAACTCTCCCCTTCGTTTTTTCCCGACTATGAGGGAATTGAAGTTTCAGATGCTGTTTGAATAATGGCGCCTGTCTGAGTTTTTTCCCGACTATGAGGGAATTGAAGGATGTTATCGACACAGACGGAAATATTAACTTTTCAAAAGTTTTTTCCCGACTATGAGGGAATTGAAGCATTTCTTTTATAGTGGCTCCCTTCAATGGAAATTCAGTTTTTTCCCGACTATGAGGGAATTGAAGAAAGGTCTCTTTTCATTATTACCCCCTTTTCTAATTCGTTTTTTCCCGACTATGAGGGAATTGAAGCTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAACGTTTTTTCCCGACTATGAGGGAATTGAAGAATTAACTCTTCAAAATAACACCAACCATCGTCAGAGGTTTTTTCCCGACTATGAGGGAATTGAAGAGACTCTATGTGACAGGTTTAATAACATTTTGATAAGGTTTTTTCCCGACTATGAGGGAATTGAAGTAAATACACATTTGAATCTCCTTCCGTTAAAATTAGTTTTTTCCCGACTATGAGGGAATTGAAGCTAGGATGTCTCTTCTCGTTAGTCTTTCTAGAAGACGTTTTTTCCCGACTATGAGGGAATTGAAGCTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAACGTTTTTTCCCGACTATGAGGGAATTGAAGAATTAACTCTTCAAAATAACACCAACCATCGTCAGAGGTTTTTTCCCGACTATGAGGGAATTGAAGAGACTCTATGTGACAGGTTTAATAACATTTTGATAAGGTTTTTTCCCGACTATGAGGGAATTGAAG

>NC_012438|16|14|1493362-1494643|PILER-CR
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATTCGATGTGATTCATTAATAATAAGTACTTAGCT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GGATAATAAGGAAAAATTTAATAATCTTATAAAGGGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTGGAATCAAAACATTCCACATCCCTGTCTCACATT
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTGATATTCTATACTAAAATCACTTGTTGGTATTCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TGGGTGCTGGAAGGCTAGAAGAAGACAGCTTATCTT
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATCTCAAGGCCCGCAGCAATTTCTAAATCTTGAATATC
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATTATCTAACTTATATAAGTGGAAAATGTAACTCTCCCCTTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTCAGATGCTGTTTGAATAATGGCGCCTGTCTGA
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATGTTATCGACACAGACGGAAATATTAACTTTTCAAAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CATTTCTTTTATAGTGGCTCCCTTCAATGGAAATTCA
GTTTTTTCCCGACTATGAGGGAATTGAAG	AAAGGTCTCTTTTCATTATTACCCCCTTTTCTAATTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TAAATACACATTTGAATCTCCTTCCGTTAAAATTA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTAGGATGTCTCTTCTCGTTAGTCTTTCTAGAAGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG

>NC_012438|16|14|1493362-1494643|CRISPRCasFinder
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATTCGATGTGATTCATTAATAATAAGTACTTAGCT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GGATAATAAGGAAAAATTTAATAATCTTATAAAGGGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTGGAATCAAAACATTCCACATCCCTGTCTCACATT
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTGATATTCTATACTAAAATCACTTGTTGGTATTCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TGGGTGCTGGAAGGCTAGAAGAAGACAGCTTATCTT
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATCTCAAGGCCCGCAGCAATTTCTAAATCTTGAATATC
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATTATCTAACTTATATAAGTGGAAAATGTAACTCTCCCCTTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTCAGATGCTGTTTGAATAATGGCGCCTGTCTGA
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATGTTATCGACACAGACGGAAATATTAACTTTTCAAAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CATTTCTTTTATAGTGGCTCCCTTCAATGGAAATTCA
GTTTTTTCCCGACTATGAGGGAATTGAAG	AAAGGTCTCTTTTCATTATTACCCCCTTTTCTAATTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TAAATACACATTTGAATCTCCTTCCGTTAAAATTA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTAGGATGTCTCTTCTCGTTAGTCTTTCTAGAAGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG

>NC_012438|16|13|1493362-1494643|CRT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATTCGATGTGATTCATTAATAATAAGTACTTAGCT
GTTTTTTCCCGACTATGAGGGAATTGAAG	GGATAATAAGGAAAAATTTAATAATCTTATAAAGGGG
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTGGAATCAAAACATTCCACATCCCTGTCTCACATT
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTGATATTCTATACTAAAATCACTTGTTGGTATTCG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TGGGTGCTGGAAGGCTAGAAGAAGACAGCTTATCTT
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATCTCAAGGCCCGCAGCAATTTCTAAATCTTGAATATC
GTTTTTTCCCGACTATGAGGGAATTGAAG	ATTATCTAACTTATATAAGTGGAAAATGTAACTCTCCCCTTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	TTTCAGATGCTGTTTGAATAATGGCGCCTGTCTGA
GTTTTTTCCCGACTATGAGGGAATTGAAG	GATGTTATCGACACAGACGGAAATATTAACTTTTCAAAA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CATTTCTTTTATAGTGGCTCCCTTCAATGGAAATTCA
GTTTTTTCCCGACTATGAGGGAATTGAAG	AAAGGTCTCTTTTCATTATTACCCCCTTTTCTAATTC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	TAAATACACATTTGAATCTCCTTCCGTTAAAATTA
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTAGGATGTCTCTTCTCGTTAGTCTTTCTAGAAGAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	CTTAATTCTTCAACTTCAAAAGATTCTTCTTGTAAAC
GTTTTTTCCCGACTATGAGGGAATTGAAG	AATTAACTCTTCAAAATAACACCAACCATCGTCAGAG
GTTTTTTCCCGACTATGAGGGAATTGAAG	AGACTCTATGTGACAGGTTTAATAACATTTTGATAAG
GTTTTTTCCCGACTATGAGGGAATTGAAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_041676175.1\|1492367_1492976_+\|uracil-DNA-glycosylase	unknown	unknown	gnl\|CDD\|381680
NC_012438.1\|WP_012674292.1\|1488514_1489315_+\|thiazole-synthase	unknown	unknown	gnl\|CDD\|234687
NC_012438.1\|WP_012673957.1\|1481528_1485197_-\|ribonucleoside-diphosphate-reductase-subunit-alpha	unknown	unknown	gnl\|CDD\|376947
NC_012438.1\|WP_012674653.1\|1481342_1481525_-\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012674235.1\|1495635_1498197_+\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_012438.1\|WP_012673499.1\|1499484_1500447_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	cd09663_csm4gr5_CAS-III-A	gnl\|CDD\|187794
NC_012438.1\|WP_012674682.1\|1491781_1492330_+\|DUF4912-domain-containing-protein	unknown	unknown	gnl\|CDD\|379808
NC_012438.1\|WP_012674282.1\|1502399_1504298_-\|ATP-dependent-zinc-metalloprotease-FtsH	unknown	unknown	gnl\|CDD\|273520
NC_012438.1\|WP_012675120.1\|1485209_1486190_-\|ribonucleotide-diphosphate-reductase-subunit-beta	unknown	unknown	gnl\|CDD\|153108
NC_012438.1\|WP_012674700.1\|1501637_1502387_-\|TatD-family-hydrolase	unknown	unknown	gnl\|CDD\|223162
NC_012438.1\|WP_012674854.1\|1490351_1491785_+\|glycogen-synthase	unknown	unknown	gnl\|CDD\|340822
NC_012438.1\|WP_012673602.1\|1500443_1501655_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	gnl\|CDD\|224251
NC_012438.1\|WP_012674533.1\|1505773_1506067_-\|30S-ribosomal-protein-S20	unknown	unknown	gnl\|CDD\|376586
NC_012438.1\|WP_012673668.1\|1494700_1495585_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_012438.1\|WP_012673999.1\|1504288_1505653_-\|tRNA-lysidine(34)-synthetase-TilS	unknown	unknown	gnl\|CDD\|274129
NC_012438.1\|WP_041676173.1\|1486401_1487022_+\|sulfite-exporter-TauE/SafE-family-protein	unknown	unknown	gnl\|CDD\|372587
NC_012438.1\|WP_012673579.1\|1487033_1488425_+\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|224157
NC_012438.1\|WP_012673872.1\|1489316_1490351_+\|galactose-1-phosphate-uridylyltransferase	unknown	unknown	gnl\|CDD\|238341
NC_012438.1\|WP_012675015.1\|1498207_1498675_+\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	mkCas0187_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_012438.1\|WP_012674307.1\|1498694_1499483_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_041676175.1\|1492367_1492976_+\|uracil-DNA-glycosylase	gnl\|CDD\|381680	cd10030, UDG-F4_TTUDGA_SPO1dp_like, Uracil DNA glycosylase family 4, includes Thermotoga maritima TTUDGA, Bacillus phage SPO1 DNA polymerase, and similar proteins. Uracil DNA glycosylase family 4 includes Thermotoga maritima TTUDGA, a robust uracil DNA glycosylase that shares narrow substrate specificity and high catalytic efficiency with family 1, acting on double-stranded and single-stranded uracil-containing DNA. Members of this family possess four conserved cysteine residues required to coordinate the [4Fe-4S] iron-sulfur cluster. This family also includes the N-terminal domain of Bacillus phage SPO1 DNA polymerase. Bacteriophage SPO1 is one of a group of large, lytic, tailed bacteriophages of Bacillus subtilis, and contains hydroxymethyluracil (hmUra) in place of thymine in their DNA. It has been speculated that this UDG domain may help discriminate between hmUra containing SPO1 DNA and thymine-containing host DNA. Uracil-DNA glycosylases (UDGs) initiate repair of uracils in DNA. Uracil in DNA can arise as a result of mis-incorporation of dUMP residues by DNA polymerase or via deamination of cytosine. Uracil in DNA mispaired with guanine is one of the major pro-mutagenic events, causing G:C->A:T mutations. Thus, UDG is an essential enzyme for maintaining the integrity of genetic information. UDGs have been classified into various families on the basis of their substrate specificity, conserved motifs, and structural similarities. Although these families demonstrate different substrate specificities, often the function of one enzyme can be complemented by the other.	3.33228e-92
NC_012438.1\|WP_012674292.1\|1488514_1489315_+\|thiazole-synthase	gnl\|CDD\|234687	PRK00208, thiG, thiazole synthase; Reviewed.	8.88567e-172
NC_012438.1\|WP_012673957.1\|1481528_1485197_-\|ribonucleoside-diphosphate-reductase-subunit-alpha	gnl\|CDD\|376947	pfam02867, Ribonuc_red_lgC, Ribonucleotide reductase, barrel domain.	1.03851e-168
NC_012438.1\|WP_012674235.1\|1495635_1498197_+\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. 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; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	7.24088e-135
NC_012438.1\|WP_012673499.1\|1499484_1500447_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	gnl\|CDD\|187794	cd09663, Csm4_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm4. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	2.51625e-31
NC_012438.1\|WP_012674682.1\|1491781_1492330_+\|DUF4912-domain-containing-protein	gnl\|CDD\|379808	pfam16258, DUF4912, Domain of unknown function (DUF4912). This family consists of uncharacterized proteins around 160 residues in length and is mainly found in various Clostridium species. The function of this family is unknown.	2.20184e-08
NC_012438.1\|WP_012674282.1\|1502399_1504298_-\|ATP-dependent-zinc-metalloprotease-FtsH	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_012438.1\|WP_012675120.1\|1485209_1486190_-\|ribonucleotide-diphosphate-reductase-subunit-beta	gnl\|CDD\|153108	cd01049, RNRR2, Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-helical bundle; some have 2 addition beta strands. Yeast is unique in that it assembles both homodimers and heterodimers of RNRR2. The yeast heterodimer, Y2Y4, contains R2 (Y2) and a R2 homolog (Y4) that lacks the diiron center and is proposed to only assist in cofactor assembly, and perhaps stabilize R1 (Y1) in its active conformation.	5.94564e-71
NC_012438.1\|WP_012674700.1\|1501637_1502387_-\|TatD-family-hydrolase	gnl\|CDD\|223162	COG0084, TatD, Mg-dependent DNase [DNA replication, recombination, and repair].	3.5628e-100
NC_012438.1\|WP_012674854.1\|1490351_1491785_+\|glycogen-synthase	gnl\|CDD\|340822	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins. This family is most closely related to the GT5 family of glycosyltransferases. Glycogen synthase (EC:2.4.1.21) catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family includes starch synthases of plants, such as DULL1 in Zea mays and glycogen synthases of various organisms.	0
NC_012438.1\|WP_012673602.1\|1500443_1501655_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	gnl\|CDD\|224251	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	5.73255e-20
NC_012438.1\|WP_012674533.1\|1505773_1506067_-\|30S-ribosomal-protein-S20	gnl\|CDD\|376586	pfam01649, Ribosomal_S20p, Ribosomal protein S20. Bacterial ribosomal protein S20 interacts with 16S rRNA.	6.57255e-15
NC_012438.1\|WP_012673668.1\|1494700_1495585_+\|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.	7.74848e-10
NC_012438.1\|WP_012673999.1\|1504288_1505653_-\|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].	7.81333e-71
NC_012438.1\|WP_041676173.1\|1486401_1487022_+\|sulfite-exporter-TauE/SafE-family-protein	gnl\|CDD\|372587	pfam13386, DsbD_2, Cytochrome C biogenesis protein transmembrane region.	9.20373e-41
NC_012438.1\|WP_012673579.1\|1487033_1488425_+\|MBL-fold-metallo-hydrolase	gnl\|CDD\|224157	COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis].	5.409e-113
NC_012438.1\|WP_012673872.1\|1489316_1490351_+\|galactose-1-phosphate-uridylyltransferase	gnl\|CDD\|238341	cd00608, GalT, Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme contains two identical subunits. It also demonstrates that the active site is formed by amino acid residues from both subunits of the dimer.	4.97902e-107
NC_012438.1\|WP_012675015.1\|1498207_1498675_+\|type-III-A-CRISPR-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	1.44948e-18
NC_012438.1\|WP_012674307.1\|1498694_1499483_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	2.55001e-71

>NC_012438.1|WP_041676175.1|1492367_1492976_+|uracil-DNA-glycosylase
MKDMGFNEVIVDNNSPLNEKIKLLNQINQEIQNCTKCDLHKNRKQAVLGEGNPNSPIMFIGEAPGEEEDKQGRPFVGRAGQLLTKAIETAGYKRSDVYIANINKCRPPNNRTPTIEEQEACFPYLKRQIEIINPSVLCLLGATAYRGIFKRETKITKERGSILDYEGKKVYITYHPAFVLRNPREEPTFFEDIKKALELAFK
>NC_012438.1|WP_012674682.1|1491781_1492330_+|DUF4912-domain-containing-protein
MNEIIKLSIQEDNLSSHILHTKDEILKPQTQDYSIPPRFDITKIVILPVNPSKFYTYWFIKEDLKKQLENKTLRIKLFVENQEVLDMPVSNTDGELYLYYHAPFKEVFCILCYIENGECVEIAKSNIFIAPSDIISQDKEEVWYNKAKKETTTKPSIYKDEDFIKYGFYTTKKHLNQTPTSK
>NC_012438.1|WP_012674854.1|1490351_1491785_+|glycogen-synthase
MKVVFASSEIYPFAKTGGLADISGSLPKEIAKKGIKVFGFMPLYKTVDIEKHKIKPINVYIDVFLNGRTYTFEVYKLIDNVIFFFLKNDELFGRDYLYGTPEGDYPDNDVRFGAFSYAVMEFIKKEELDPDIIHVNDWQTSLIPVLTYYKYNWHHVRTVLTIHNLAYQGIFDKFAIERLNLGWDLFHMEALEFYDKVNFLKGGIVFSSAITTVSPTYAKEILKPEYGFGLDGLLRKYENKLYGIINGIDYNVWNPETDKYIYENYCEYTIEKKSINKKLFLKETNLEGEEKPLFIFIGRLAQQKGIDLIKDSIEELSKLPINLAILGSGDKEYNDFFESIKGKYENIFIKVGYDEPFSRKMYAAGDFLLMPSLFEPCGLNQMIAMRYATLVVARKTGGLNDTVVDISQPDGYGILFENPNKYEFLNAINRAIDLYNNKQKFLELQKRVMGFDFSIESTAQKYIKLYESLKYSREVVL
>NC_012438.1|WP_012673872.1|1489316_1490351_+|galactose-1-phosphate-uridylyltransferase
MSEFRYNYLKDTWVIIATERSKRPHDYNVSIYEEPITDISKCPFEYGNEDKTPPEIFAIRPDGSNPNTPGWLTRVFPNRYPALRIENSPISEGYYIFDKKGGFGAHEVIVETPDHFKHIQDFDQQDFINMFITFRERIKSLYNDYRIKYIHIFKNHGKEAGKSLVHSHSQLIALPMIPKQPFTMILQSKKYFLEKERCYTCDEIKLESQLGERVIYENENFISYCSYASLYPFEIKIAPKYHRHDFSTITEDKMKDLADVMRFTVKKLDKTLINPPFNMVLYSAPPYRDDTINKEIFNHINNYFHWHIEILPRITTLAGFELGTDYYINPTPPEEAAKFLREVV
>NC_012438.1|WP_012674292.1|1488514_1489315_+|thiazole-synthase
MFDLEKFLEEDKLVIGGKAFKSRLIVGSGKYKDFKETKEATEASGAEMITVAVRRVNITDPTKENLLDYIDTKKIMILPNTAGCYTAEEAVLTARLAREALGHGFVKLEVIGDQKTLYPDMVETLKAAEILVKEGFTVLPYITDDPVMAKRFEDIGCAAVMPLAAPIGSGLGLQNPYNILFIKEAVKIPVIVDAGIGTASDAAMVMELGVDGVLMNTAIAGAKDPIKMAVAMKHAVIAGRLAYLAGRIPKKMYASASSPTEGIIGR
>NC_012438.1|WP_012673579.1|1487033_1488425_+|MBL-fold-metallo-hydrolase
MIVQSFGGSEGVTGSCHLVKVDHMNILIDCGMFQGLDEDKNYEPFGFNPKEIDYLILTHAHIDHCGRIPLLVKQGFRGKIISTRPTYAVARIMLLDAAKVMGEEYKVNYKKALRKGKPEEAKPPLYDEDDVFESMEYFKVLLDYNEKYKLSKNVEVVFRNAGHILGSAYVELTVRENFNTKKIIFSGDLGTDDKLVIKPIDYPKGADVLFIESTYGNRNHRPLDQTIEEFKAAIIESFKDGGNIVIPTFALERAQEILFILRKMYDNGELPKCKIFLDSPLAISATKLFLQFPNQLNGEVLSYLKRGANPFVFPWVYFTESVEASKKINDIESGAIILAGSGMCNGGRIKHHLKHNLWRENSSVIFVGYQAKGTLGRQIVDGAKVVKIYGEEIAVKARIYTINGFSAHADQKVLLKFIKSTKDLQSLFLIHGEPEVMQVFKGKIKEETKLNPHIVKLKEYVYI
>NC_012438.1|WP_041676173.1|1486401_1487022_+|sulfite-exporter-TauE/SafE-family-protein
MILLGGFLGSYHCIGMCGAIPTLIIYKNFWVGNILYNFGRVFTYVFLGFLAGLLGMYFHNFEFQVFQKGLSIFLGIGMVVFGLQVVGSIKEKGVPFLDVIFFTISDMLNAFRKSPFFLGMFNGFLPCPLVYAFLMKAVLDKDPFKGMLTMFFFGLGTIPAMLFSSKLIASISPATRKNLSKLAGVIIIIFGIWTILRVFGIGHHHH
>NC_012438.1|WP_012675120.1|1485209_1486190_-|ribonucleotide-diphosphate-reductase-subunit-beta
MALIGKTSVRDNIRLTENPKYPVFRELYTKQKKAVWFPEELNIQQDVLDYKSLTPTEKDLFDSAVGYFASSELLVQNVLGNGFFPVLTDPYAKMSFSTQMFMENIHSDFFEIILNSFDMDRKKIYNITLEDKLLKEKQELIVRAVDRITYGKADPDTLEGKKQILTSILLNNIIQEGLFFYSAFAHFFAMKDTGKMKNVVAGVELILIDESLHLQNGIEAILTMVEENPEIVDDYNFVENIRQSIIDAVELELNYLKTKFGGTTIFGVSYNELERYMKYIADRRLVELGFDPQFGIDQNPLKFLQKEDVKKLTNFFEVSSTEYTNF
>NC_012438.1|WP_012673957.1|1481528_1485197_-|ribonucleoside-diphosphate-reductase-subunit-alpha
MQRIVVKRDGSVEKFQMKKLVDAIFALLEGLELPDDYEIVFKVAKELDLKIPEKVTTEELDYLVLKAIEHLIPKNYIYDTLATRQLLKIINRRIDRRFNSFKDYINYAVEEKLLKPELLQFDIDRLEKSIDYSRDYNLDYFGLSTLKDRYLMKDRDFETIEKPQWFFMRVAMGIGNTEDEIIKIYNKLSNLEYLHSTPTLFNSGTLTNQYSSCFPAGTPVITIDGVKNIEDVKIGDVVLTAEGNYKVVSGLFSRKYQRELYKLYVWGLWGREETVKATDDHRFLVLKKEDVECDRKFVKVCPPYQNTEKCYPVKRQYAYICEEVETNLLENLKWVEAKDIEAGDYIVIPYPKGISEKVELNILDYIDNPYLVEKDGYIHKINHDKQKRTPEFNGQINKVKSKIKIDYDFMRFLGYYLAEGYINKSGNKLSTVFTFGVKDKEFIEDVISLSKKLFDINPTVAHNKDNSVRITLNSTYLSQFIKNLVGTGFNKKILPPEIMLAHPEVQKGLIVGLFRGDATAVKDGYRLTLSNKSLIYQIFHILLRIGSLPRISKASKNHLATEDPYSVYISINDSEDLIRLINKDTHKITAKPDKTKINSYRFKYKDVVFYKITKVEKEIFDGTVYDFEVKGDHSFAANLVAAHNCYVNVIDDSLESIMDKAKETAFLAKYAGGVGTDVTRIRATGSKIHSLNAKSSGIIPFIKIFDTIVNAIQQGGRRRSSQVMYLQPWHLDVEAFLDLRETTGNPYFRTPSLNTALWMPDELMRRIKEGEPIYLFDPAECPKLVTAWGEEFKKEYESCIEKAEKGELKLWKKIDSRDFYKKYLFKLAKTGHPWLTFKDRHNEKNPCPQYSVINSSNLCTEISIPNSPESTAVCTLASVNLARHVKEDKSDFDWDKLKDTLETMVVALDNILDKNFYPSEESRKNTMDLRPIGIGVMGFHEALIKLGIPYDSDKAVETARKIAKFMREVTYAKSEELAKERGAFPHYYEANYNYPPRRNAVLLAVAPTASISIIAGTSSSIDNYFSNIFSRDTLSGKFIVINKPLMKELEEKGLWSEELAEKIKAHQGSIQYIEELDGKIDKSLYKTAYEVSPYRQIDIAAAFQEYIDQAVSKSLYIEEDLRDKMEDIYMYAWEKGLKSTYYCFIDKTVKGEKYTLNVNKRGERRGFGLAKRNDKELEKELEEIERQAREKYGDEVVDAVKSGNIEGCPTDPLLAKICPSCE
>NC_012438.1|WP_012674653.1|1481342_1481525_-|hypothetical-protein
MIKKEDLEKEIENLPEEVISSGYSKGYNPNDILCRMCAYKSCMQEKEGRLLLGSKLKKKS
>NC_012438.1|WP_012673668.1|1494700_1495585_+|CRISPR-associated-endoribonuclease-Cas6
MFDFEFSRLRLEFKALNSFQTPYFLGSAFRGIMGKNLKKIVCIKPFEESCKNCQLKNTCPYTVIFETEEILNYPAKYAIKPPFQVIHLQENQTINLDITLLGSSANYWEFIISSFSNTLNLGKERYLKLDKIYFYNPIEEKYYPLKRNIPKFQAKDLLNLKTDKQQLTLQLNPTSIKHQNQIVNPQDFNRDILIKAILTRISAVAQSYGEKTEKIYIDKEKINITQQNLKQTILKRYSNRKQRHMNIPAIEGELTLTGDLNQIYGLLKIIENINLGKSVSLGLGSVKLLSENST
>NC_012438.1|WP_012674235.1|1495635_1498197_+|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MHKKEKYLIAIAGLLHDIGKFYQRATNKKTTDEDKKIFQYAHAYLSYEAINQELKEGLESVFSQEELKTILDGCYHHKPTTPIQHLLQKADWISSSERSKDQTIYNLEILSPDQKKKLENFAVQNPRLRSVFENLSLGKEYKKRNYFYKIAPLNLSKDIFPKDLEYTYGQIDTKAADEEEELGSYPKHWESFKTEFNQKLKNAVKFENSPEKIFSLIYHLLYKYLWCIPASTYDKENYSNHYPDISLFDHSRVLSAVACCFYDYDKEGFTQEGTNKFQNKFKDKEVFLHIKGDISGIQKFIYNVYAGKRGTAKTLRGRSFYVSLLPEILSRYILNQLEYPISNLLYSGGGIFEILVANTQENLDKILKIKQEIEEFLATDFEADLGLSLGYYQYSPIEMMKDYKTVLSKLNENLDNAKKEKFSTLIDSGKIFDLLNKKVSDIKQNKKRCPVCKTYLISENLQDDDEICEVCEKFRNIGQFLPKTEYLIFAKNLTPNFVENKKVVNFKKFGAVYLVDKNNISDLQPLFLDPEITEILAINDTSLKRYTTGFKFIGKVVPEAEKDAPLPEEDDKIEEGQIVPFSYLAQFSEGDDRIGILRMDVDNLGKLFSEGLKDKISISRIATLSRSLDLFFSGYLNEICKALTSEYKKQNQDANVKNFFYILYSGGDDVFLVAPWDKAIDIAEKINNEFKNYTCGNPNITLSAGYIQVKHKYPIRFAADLAGEAEEVAKSSGKDRICILGDVLQWNEIKELKSTSEKWIEYIKRNKLQRGFIYAVHRLKEQFLKDLNKSSKVAFPYREIGKEDLMFYPYAQYYIARNINKDIREEVSQFLLDKQNFKKLTFLVNYISLKTRN
>NC_012438.1|WP_012675015.1|1498207_1498675_+|type-III-A-CRISPR-associated-protein-Csm2
MNGRNPNQQKNNGQDNSFINTNNLVQKIKSAPKLSDVLTPKEFAPIGGWAYQIAFELKSAKPKLNTSQLRKIFTEIKSICDNREKVLQDKTPLYLLYPKLAYAKGRELMPEVFYNLIVACLDKLKDGKADEEDFKNFGDFMTAIVAYNKQYEPKN
>NC_012438.1|WP_012674307.1|1498694_1499483_+|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MSLNFEGIYVIKATLKCITGLHIGGSKESFEIGGIDNPVIKTSISIQLPDREIKEGMPYIPGSSLKGKIRSLLEWKEGLVKPKRNSEGKIEGEVSDITSNGNLSNVSIIFGVRDSKIREATVAGPVRVKFADIYPTKETIEKWENELGPGIYTEVKTENAIDRITSSANPRRQERVPAGSEFKVEITYEKFDKQDEDRLRIVFEGMKLLEDNYLGGGGSRGNGRVKFENIEILYKDFYQGTAEKIGNFQSIDDVLSYFKKGV
>NC_012438.1|WP_012673499.1|1499484_1500447_+|type-III-A-CRISPR-associated-RAMP-protein-Csm4
MKLYKIDITPYSLFRDIPSSYTVFGGLCWAYLILYGEDKLYNLLSQFENNNPPFLLSSLLPREEKNYYFPKPNLKAERKENSDLDHKSLKKINYVDLDTVIQVLDGKIKTEYELNQLLQQKLKEGKLKKISFLSKESLPHASIDRLYGTTQGSGTLFFDESVSIGESFLIVAVRDDEVKKELEAIVKLLQDIGIGGNRSIGFGKVKFGEFENFTQIENYFNQKTDIFITLSPLIPEPFTYDLQNSYYEYFTFRGAIDNNYNFQNVDIWKEKILYLKEGSTLKVKSQKNFYGSFLIAKNINGVKIFQYGLAFPLYIKGGTQ
>NC_012438.1|WP_012673602.1|1500443_1501655_+|type-III-A-CRISPR-associated-RAMP-protein-Csm5
MKFNLTVLSPIHIGNGNQISNWSYSYDERNKKIKIYNFEEVVKSLKDNVQRLINLTSLIERHPLEKSLGEVISSYGITVKPLYQIEFKGDIKRKNGNEYKPIYEFIKESGKVYIPGSEIKGAIRTALFYKILKDKFLESPAIKNKFLEDYKECVNVSNYRDERERKANIKKNFSNFIKRWESIAFRAGFSKVFDREFKQEDAKKDILKLLLVSDSDLKDPQECLEVQDIKSLGVSRGFRELHELLKVGTKFTIDLEVSFKEEYKELLPETYGYLDLELKKIKEACSEFANAILNEDIHYIENIKNTNIKNTNEINDKEKESILNKLKKRRELVEKGFFVLRLGKHQGFLSTTINLLVKELAPEVYSEVYPNLVNKGYKDKPNKSRKITYDNEFMGWCVLIKAE
>NC_012438.1|WP_012674700.1|1501637_1502387_-|TatD-family-hydrolase
MVDTHCHLDMIPLQDVEESVKRLDYLLTIGCDKQEIKKALEIGSKYENVFVAIGYHPYDIGDLTDKDIEELENLIKENSKVIAVGECGLDFYREKTPKDKQEYFFRKQIELAKKLKKPLIIHSRSADRETEKILSEYAPFESGGIMHCFGGDERLMEFSLEAGFYISFAGNITYPKADNLRNILKKVPLDRLLLETDSPFLSPQKVRGTQNKPSNIYYTLEFASELLGIEKSKLEKTTDENFKRLFSLN
>NC_012438.1|WP_012674282.1|1502399_1504298_-|ATP-dependent-zinc-metalloprotease-FtsH
MQLTRSLLIWFLIGAMMILAFNMFGTKQISDSKVSFTDFMTMVNEKKVVEATVRGEELTAITEDGKKVETVIPQGYSKLYDILSENGVQVKVVSTENSSWLMTLLISWLPILLFIGLWIFMMRQMSGGPNRAFSFAKSKGKLYLEERPNVKLDDVAGMDEVKEEVKEIIEYLKDPSRYQKLGGRAPKGILLYGDPGVGKTLLAKAIAGEANVPFISISGSDFVEMFVGVGAARVRDLFETAKKHAPCLIFIDEIDAVGRARTGVGFGGGHDEREQTLNQLLVELDGFDTNEGIIVIAATNRPDILDPALLRPGRFDRQISVPKPDVKGRYEILKVHVKKKNIPLAEDVDLMTIAKGTPGFSGADLANLVNEAALLAARRKKEKVGMQELEDALDRIMMGLERKGMAITPKEKEKIAYHEVGHALVGVMLEEADPLHKVSIIPRGMALGVTVNLPEEDRHLYSKKDLMARILQLFGGRAAEEVFYGKDGITTGAENDLMRATELAYRIVAAWGMSDEIGPIHVPTNRSGSIFMGGQGIEISEETARKIDEEVNKILRESYQKAKNIIETYKDAVIAVVQLLLDKETITCEEMFAILKEYGVPVLNRCRKFENVNVITDSSAPDVPGAELPTVA
>NC_012438.1|WP_012673999.1|1504288_1505653_-|tRNA-lysidine(34)-synthetase-TilS
MIEKKFLKAVKDFSLIQPKDKILIAFSGGPDSVVLSFLLKKFQAYFKIEKISLAHLNHSLREESDKDEEFCKDFGQKYDIPVFVKKVDVKSVAKKEKKSIEEAGREERYKFFKEIMEKENFNKLATAHHLSDLIETMFLWFVQGNKKGLKGFKPNEENIIRPLYYIKKEELLEYCHKNDLSYVIDKSNFDKRYLRNKVRLDLIPIAKEINHSLEESLLRLSFFQSVDEDFLEIYSKDILKSLQEKDYIDLNYLNTLHEAVKYRVITNWIYEKTRIYPSYQKMLNILKLLKMGGTKALHLQENLQLIKEYDKLYLNYTQKVEKSYKEYKLKIGQTIFIKEQGISLTAFKPTEKDLEEMKKSKCIECFDIDTDEFTVRFRKEGDRFLPFGMKREKKLKDVFIDLKIPKNMRNSIPLLVFGDKILWIVGYKRSAYYPVTENSQNLICFKVKEEQNCN
>NC_012438.1|WP_012674533.1|1505773_1506067_-|30S-ribosomal-protein-S20
MAKATLSPKKLKHKRRVKKNVRVAERRRLENRYHISRMKTAFKKFYETLKKEGKEAAEKLLPLCQKLAYRAAAKGAIHKNEAARRVSRAAKRLKQVA

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Crispr_ID: NC_012438_17

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012438_17

1580054-1580761

Orphan

Consensus_repeat	Method
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CRT

10 spacers

The CRISPR arrays of NC_012438_17

>merge|NC_012438|17|1580054-1580761|PILER-CR,CRISPRCasFinder,CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAACACCTTTTCCGATGATGTTTGAATGAGTGTACCAGTGTGTTTTTCTCCCGACTATGAGGGAATTGAAACCTCTTCTTTGGACTAAAACTTTACCAACCATGTTGCGTTTTTCTCCCGACTATGAGGGAATTGAAACTCAACTTGTACTAAACCTGGTGATACATAGACCACCAGGTTTTTCTCCCGACTATGAGGGAATTGAAACTATAGACTCTCGTAAAAATTGAATATTTTCATTTCAGTTTTTCTCCCGACTATGAGGGAATTGAAACATAGCTTTGCAAGCATTTTGTCATGATTTGCTTGAATGTTTTTCTCCCGACTATGAGGGAATTGAAACTAACATGATTGAAGCTATAGTTGATGTTGATGTTGGTTTTTCTCCCGACTATGAGGGAATTGAAACTACTCTTCAAAGTTTTATGAAAGCATGACTATACTTGGTTTTTCTCCCGACTATGAGGGAATTGAAACTCTCGAAACTCGAGATAAAACTTATCACTACCGCCCGTTTTTCTCCCGACTATGAGGGAATTGAAACCTAATTGGATATACACATTATCTCTTTCAGTGAATATCGTTTTTCTCCCGACTATGAGGGAATTGAAACTTAATTAACTGAAAGTATACATCATCTTTTTCCTTGAGTTTTTCTCCCGACTATGAGGGAATTGAAAC

>NC_012438|17|15|1580054-1580761|PILER-CR
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ACCTTTTCCGATGATGTTTGAATGAGTGTACCAGTGT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTCTTCTTTGGACTAAAACTTTACCAACCATGTTGC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCAACTTGTACTAAACCTGGTGATACATAGACCACCAG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TATAGACTCTCGTAAAAATTGAATATTTTCATTTCA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ATAGCTTTGCAAGCATTTTGTCATGATTTGCTTGAAT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TAACATGATTGAAGCTATAGTTGATGTTGATGTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TACTCTTCAAAGTTTTATGAAAGCATGACTATACTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCTCGAAACTCGAGATAAAACTTATCACTACCGCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTAATTGGATATACACATTATCTCTTTCAGTGAATATC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TTAATTAACTGAAAGTATACATCATCTTTTTCCTTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC

>NC_012438|17|15|1580054-1580761|CRISPRCasFinder
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ACCTTTTCCGATGATGTTTGAATGAGTGTACCAGTGT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTCTTCTTTGGACTAAAACTTTACCAACCATGTTGC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCAACTTGTACTAAACCTGGTGATACATAGACCACCAG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TATAGACTCTCGTAAAAATTGAATATTTTCATTTCA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ATAGCTTTGCAAGCATTTTGTCATGATTTGCTTGAAT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TAACATGATTGAAGCTATAGTTGATGTTGATGTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TACTCTTCAAAGTTTTATGAAAGCATGACTATACTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCTCGAAACTCGAGATAAAACTTATCACTACCGCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTAATTGGATATACACATTATCTCTTTCAGTGAATATC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TTAATTAACTGAAAGTATACATCATCTTTTTCCTTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC

>NC_012438|17|14|1580054-1580761|CRT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ACCTTTTCCGATGATGTTTGAATGAGTGTACCAGTGT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTCTTCTTTGGACTAAAACTTTACCAACCATGTTGC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCAACTTGTACTAAACCTGGTGATACATAGACCACCAG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TATAGACTCTCGTAAAAATTGAATATTTTCATTTCA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	ATAGCTTTGCAAGCATTTTGTCATGATTTGCTTGAAT
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TAACATGATTGAAGCTATAGTTGATGTTGATGTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TACTCTTCAAAGTTTTATGAAAGCATGACTATACTTG
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TCTCGAAACTCGAGATAAAACTTATCACTACCGCCC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	CTAATTGGATATACACATTATCTCTTTCAGTGAATATC
GTTTTTCTCCCGACTATGAGGGAATTGAAAC	TTAATTAACTGAAAGTATACATCATCTTTTTCCTTGA
GTTTTTCTCCCGACTATGAGGGAATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012438.1\|WP_012673597.1\|1573374_1574655_+\|porin	unknown	unknown	gnl\|CDD\|369347
NC_012438.1\|WP_012674243.1\|1586697_1588287_+\|phosphoglycerate-dehydrogenase	unknown	unknown	gnl\|CDD\|237436
NC_012438.1\|WP_012674477.1\|1580866_1582582_-\|ComEC/Rec2-family-competence-protein	unknown	unknown	gnl\|CDD\|377126
NC_012438.1\|WP_012673450.1\|1590073_1591057_-\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_012438.1\|WP_012674164.1\|1576161_1576623_+\|DsrE-family-protein	unknown	unknown	gnl\|CDD\|376874
NC_012438.1\|WP_012674615.1\|1585417_1585672_+\|hemerythrin-family-protein	unknown	unknown	gnl\|CDD\|274154
NC_012438.1\|WP_012674386.1\|1574710_1575214_+\|DsrE-family-protein	unknown	unknown	gnl\|CDD\|224334
NC_012438.1\|WP_012673524.1\|1588301_1589408_+\|inositol-3-phosphate-synthase	unknown	unknown	gnl\|CDD\|224180
NC_012438.1\|WP_041675904.1\|1572719_1573349_+\|DUF302-domain-containing-protein	unknown	unknown	gnl\|CDD\|269820
NC_012438.1\|WP_012673834.1\|1582578_1583187_-\|VTT-domain-containing-protein	unknown	unknown	gnl\|CDD\|182775
NC_012438.1\|WP_012674689.1\|1577785_1578340_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NC_012438.1\|WP_012674453.1\|1579646_1579799_+\|hypothetical-protein	unknown	unknown	unknown
NC_012438.1\|WP_012673922.1\|1577264_1577789_+\|HAD-IIIA-family-hydrolase	unknown	unknown	gnl\|CDD\|224692
NC_012438.1\|WP_012674054.1\|1584920_1585217_-\|co-chaperone-GroES	unknown	unknown	gnl\|CDD\|178988
NC_012438.1\|WP_012674420.1\|1583269_1584901_-\|chaperonin-GroEL	unknown	unknown	gnl\|CDD\|234573
NC_012438.1\|WP_012673742.1\|1578333_1579659_+\|MATE-family-efflux-transporter	unknown	unknown	gnl\|CDD\|240542
NC_012438.1\|WP_012675014.1\|1585702_1586623_-\|TIGR01212-family-radical-SAM-protein	unknown	unknown	gnl\|CDD\|224163
NC_012438.1\|WP_012675130.1\|1575227_1576148_+\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293840
NC_012438.1\|WP_012674492.1\|1589410_1589629_+\|DUF167-domain-containing-protein	unknown	unknown	gnl\|CDD\|376843
NC_012438.1\|WP_012673823.1\|1570989_1572723_+\|thiosulfohydrolase-SoxB	unknown	unknown	gnl\|CDD\|275279

Protein	Function_ID	Function_description	E-value
NC_012438.1\|WP_012673597.1\|1573374_1574655_+\|porin	gnl\|CDD\|369347	pfam07396, Porin_O_P, Phosphate-selective porin O and P. This family represents a conserved region approximately 400 residues long within the bacterial phosphate-selective porins O and P. These are anion-specific porins, the binding site of which has a higher affinity for phosphate than chloride ions. Porin O has a higher affinity for polyphosphates, while porin P has a higher affinity for orthophosphate. In P. aeruginosa, porin O was found to be expressed only under phosphate-starvation conditions during the stationary growth phase.	2.61881e-13
NC_012438.1\|WP_012674243.1\|1586697_1588287_+\|phosphoglycerate-dehydrogenase	gnl\|CDD\|237436	PRK13581, PRK13581, D-3-phosphoglycerate dehydrogenase; Provisional.	0
NC_012438.1\|WP_012674477.1\|1580866_1582582_-\|ComEC/Rec2-family-competence-protein	gnl\|CDD\|377126	pfam03772, Competence, Competence protein. Members of this family are integral membrane proteins with 6 predicted transmembrane helices. Some members of this family have been shown to be essential for bacterial competence in uptake of extracellular DNA. These proteins may transport DNA across the cell membrane. These proteins contain a highly conserved motif in the amino terminal transmembrane region that has two histidines that may form a metal binding site.	5.25428e-49
NC_012438.1\|WP_012673450.1\|1590073_1591057_-\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	1.28773e-21
NC_012438.1\|WP_012674164.1\|1576161_1576623_+\|DsrE-family-protein	gnl\|CDD\|376874	pfam02635, DrsE, DsrE/DsrF-like family. DsrE is a small soluble protein involved in intracellular sulfur reduction. This family also includes DsrF.	1.84433e-12
NC_012438.1\|WP_012674615.1\|1585417_1585672_+\|hemerythrin-family-protein	gnl\|CDD\|274154	TIGR02481, hemeryth_dom, hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.	1.51045e-17
NC_012438.1\|WP_012674386.1\|1574710_1575214_+\|DsrE-family-protein	gnl\|CDD\|224334	COG1416, COG1416, Uncharacterized conserved protein [Function unknown].	7.27159e-15
NC_012438.1\|WP_012673524.1\|1588301_1589408_+\|inositol-3-phosphate-synthase	gnl\|CDD\|224180	COG1260, INO1, Myo-inositol-1-phosphate synthase [Lipid metabolism].	0
NC_012438.1\|WP_041675904.1\|1572719_1573349_+\|DUF302-domain-containing-protein	gnl\|CDD\|269820	cd14797, DUF302, Uncharacterized domain family DUF302. These domains are mostly found in bacterial single-domain proteins and have been shown to form homodimers; they may also bind zinc. Also characterized as COG3439.	1.56111e-17
NC_012438.1\|WP_012673834.1\|1582578_1583187_-\|VTT-domain-containing-protein	gnl\|CDD\|182775	PRK10847, PRK10847, DedA family protein.	2.92049e-70
NC_012438.1\|WP_012674689.1\|1577785_1578340_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	1.3981e-16
NC_012438.1\|WP_012674492.1\|1589410_1589629_+\|DUF167-domain-containing-protein	gnl\|CDD\|376843	pfam02594, DUF167, Uncharacterized ACR, YggU family COG1872.	5.51848e-23
NC_012438.1\|WP_012673823.1\|1570989_1572723_+\|thiosulfohydrolase-SoxB	gnl\|CDD\|275279	TIGR04486, Sulfur_oxidation_protein_SoxB, thiosulfohydrolase SoxB. SoxB, a di-manganese(II) enzyme, works with SoxYZ and the c-type cytochrome SoxXA in oxidation of thiosulfate to sulfate.	0
NC_012438.1\|WP_012674054.1\|1584920_1585217_-\|co-chaperone-GroES	gnl\|CDD\|178988	PRK00364, groES, co-chaperonin GroES; Reviewed.	2.65101e-47
NC_012438.1\|WP_012674420.1\|1583269_1584901_-\|chaperonin-GroEL	gnl\|CDD\|234573	PRK00013, groEL, chaperonin GroEL; Reviewed.	0
NC_012438.1\|WP_012673742.1\|1578333_1579659_+\|MATE-family-efflux-transporter	gnl\|CDD\|240542	cd13137, MATE_NorM_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM. 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. A number of family members are involved in the synthesis of peptidoglycan components in bacteria.	1.01936e-149
NC_012438.1\|WP_012675014.1\|1585702_1586623_-\|TIGR01212-family-radical-SAM-protein	gnl\|CDD\|224163	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only].	1.88118e-152
NC_012438.1\|WP_012675130.1\|1575227_1576148_+\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293840	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase 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, hydroxyacylglutathione hydrolases, AHL (acyl homoserine lactone) lactonases, persulfide dioxygenases, flavodiiron proteins, 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 and ribonuclease Z, cyclic nucleotide phosphodiesterases, insecticide hydrolases, and proteins required for natural transformation competence. Classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, however the diversity of biological roles is reflected in variations in the active site metallo-chemistry.	3.96069e-70
NC_012438.1\|WP_012673922.1\|1577264_1577789_+\|HAD-IIIA-family-hydrolase	gnl\|CDD\|224692	COG1778, COG1778, Low specificity phosphatase (HAD superfamily) [General function prediction only].	4.34659e-71

>NC_012438.1|WP_012674453.1|1579646_1579799_+|hypothetical-protein
MENLDLVKLVIVLIVSFVIMKMVGFAIRMIVKILVLIGIAYFIFQYFVSK
>NC_012438.1|WP_012673742.1|1578333_1579659_+|MATE-family-efflux-transporter
MLSETNKKILSLAVPAAFSNLFDMIQVIVDMIMLGRVSPVAIAAAGISMQFLGLLYAFMASFSVGNSAVVSRFVGAKELDEASKTTFTSSVIAFLISIPFTIFGVFFSKYVFIFMGSSEEVVKAGETYLSIISLTFPVIFIEFALYSSLNASGDTKTPLKIVVVANVINTVLAYTLIFGKFGFPALGIKGAAIATAISYYISFVLYLYVFLTKKSIVSFYPLFVKDYAKRVLGIGIPAGVERVITYFSFLLFVKMIAEYGTYTLAGYQVGLRIEGLAFMPGFGFTIAAMTLVGQSIGAKNYEEAQKLGWQTAKIASVFMGFMGVLMFLFPQYFAMIFTNDEKVIQEAILYLKVVGLTQVPLAIGFVLSGALRGAGSTKLTLLINTASLWFFRIIPAYVLSKMFGNVLYIYYAMFVETFLKAGILYYMFKKGYWKRQVKWKT
>NC_012438.1|WP_012674689.1|1577785_1578340_+|class-I-SAM-dependent-methyltransferase
MNDKDRERWNKKYLEGFLPKEEPSTILKDFIHLANKGKALDIAAGLGRNALFLAQNGFTVDAVDISDVAIEKLKNLHPNINPIHADLKEYRPPENTYDLIVNVNFLERSLFPYIKEALKEGGVLIFETFLEGSPSKTTKDFLLRKNELLHSFLSLHVVFYQEKQVITCNQETAYKAYLVAIKKC
>NC_012438.1|WP_012673922.1|1577264_1577789_+|HAD-IIIA-family-hydrolase
MLEEKAKKVKWFVFDVDGILTDGKIIYDSEGREIKNFCVKDGIGIHMLHLSGIKTAIITGRNSEVVNKRAIELGISEVFQNSSNKLQHYKYLKEKYSLQDEEILYMGDDIVDIPVLKRVGFPATVPSAPEEVKKLCIYITQQEGGNGAVREVIDLVLKIQGKYENIIKKYCDLE
>NC_012438.1|WP_012674164.1|1576161_1576623_+|DsrE-family-protein
MKKFLAVILLFVGFSFAQDNPKAVINLTTGDLNRFKMYLLSGVANSAEYYKNNLKDLKVVVIIHGDAYKFFIKDLQNSPYKDDKTLIEAQKELQAKLEYLHKNYGVRFQMCEQGMKGKKIDPKTLYPFVELIHNAFIGLVNWQNEGYAYIPLH
>NC_012438.1|WP_012675130.1|1575227_1576148_+|MBL-fold-metallo-hydrolase
MKKIFFVVLLLIVSNTFAMDLKQFYKNMYMVRGVDAMPSVENRGFMSNAYAILTKEGWIVIDSLSTPELSKEFYDELMKVKKAPLKYLIITHYHPDHWYGASTFKQAGATVIAHKKLNEFYNSPEAKMTLEASNQRFGGLYKNVKLIPADVEVSDKKDLKVGEYEISIISMTPAHTNNDIVVFVKNEKVLFAGDLVYINRIPFAGDRGASSKNWLKVLNEMKNLNPKIILGGHNEPMDIKAIDFTYNYLEYTRSTVKKLKEQGKSLDEIKAYINQNSPYKNYVMCDVFNDANVYKIYNDLDLEDFE
>NC_012438.1|WP_012674386.1|1574710_1575214_+|DsrE-family-protein
MKKVFVLFVVLLFYLKSFSQEKPQFDSTLPDKIKAVFDWTFENPSDSVMATNFISNFIKAYDEFNPMGEYKLAVVSHGAEVLIFAKKNYEKHKEVIDRLKSMTQSYGLKIYVCRNTLRFFGLKEEDMQPFVIIVPAGVVELAKLQEEGYKLIPAVVHDLNKVKENYK
>NC_012438.1|WP_012673597.1|1573374_1574655_+|porin
MRKVVLSAALGLAATALLSNPSQAAPKFYFGDGKELEIFFMNQLWGVYTMDRVEGTTKYDNRMDFFLRRSRVGFQGKITEDLSWRVWFAYDNVGLDPHTALAKNSNIGLVSLNSGNKEFYLWDAFFTYALHKNWANITVGYFRPQVGRENITAGFEVSSFEKALTNFYPRQHLVGTGPGRETGINIGGLYNDEKAKWGINYNFGVFNTDKFNSGSGGDNLLYTARVALSLGDPEMKKYSMGYKVNYFGKRNGITFAVNYAYQGRGWDTNQFPLADTTIWAGKLDANNKPKISFKNNQLLGFDILANYKDFTFNVEYDELKRNFDNSALNYKDKVWHVRAGYNFTLPNKTILEPAITYSEWEGDKASLNGNGKYKVTDIGLNWYIKQNNIKLNLHYVNQDGTKKSAYTTNGTDKAGDYIGVGLQLIF
>NC_012438.1|WP_041675904.1|1572719_1573349_+|DUF302-domain-containing-protein
MKKFILALGSVFLFSCGGMIKDVSFETGDYLGTGYDEKPQKKITIQKESKEKQQTEKKSFLSALSSAVVSDSDDDEDMSDIYERSTNMSYQELDLLLRTELENANFKIVHVLNITNGVEEQGVKDFWKHMHIYLVCKLSECSKILKHNPQLASQFPIRVYTYEKDGRLIVGVFKPSMAIKYMGNLDAEGIKALKTLDREIKKVIDSVTK
>NC_012438.1|WP_012673823.1|1570989_1572723_+|thiosulfohydrolase-SoxB
MNISRRDLFHLAAISGLSLTSTDVFAKLNEVKPESFFEFKGVGNVTLLHICDLHAHLKPLYWREPSTLISAKELIGTPGFLCGKAFMQYYGIKPNTIRAYFDTYIGFEELAKKYGKMGGVAYIKALVNRIKAERGADKVLFMDSGDTWQGTAVGLFTQGKAIVDAQNALGIDIMVGHWEFTYGKDRVLELVNKHLKAEFISQNVADEMWGDLIFKPYTIREVGGVKVAVIGNSFPYTPIANPKEFTEGWTFGIQAERLQKFVDEVRSKGADVVVLLSHDGFTLDQALAKMVKGIDVILSGHTHDPAPKPVIVGNTIIVIAGSHGKYLGRLDLEVKNKKITNFAFKLYPVASNFIKPDPEVEKFVEEVYKPYESQLSQVIGKTQTILYKRDTFYSTFDRVIMDAIKEETDCEIVFNPGYRWGTTVLPGGDITVDDVYSMTAITYPDVYRFELTGQQIKNLLEDIADNVFNSNPLYQQGGDMSRTLGLDYEIKISAPTGQRISNIKVNGKDLDPNRSYVVASWGGNLYRAGKNAKKFRPVYDITIDYIKRVKVVNPPLKSNVKILDVGCGCPTSEGKCL
>NC_012438.1|WP_012674477.1|1580866_1582582_-|ComEC/Rec2-family-competence-protein
MIYPWLFTLITFVLGILLNQKLNLSVSLVVPVLVFLLSVVFKGYLRYIVLNVGVFLLAFSVSYKEKIDSFEIKNPSFFECRVVSFPNEYKTSKSFDCKVISSDYQQLKGKSIKVYSKEEDIYFFTRLAFFGKGKVEDGEVKVSTIKNFVIVDNSDNPLYSFFKLKDNLIKNYGLHRLNNETFATGTALIFGERRYIDYSIYKPFLETGLAHLIAISGSHIAILFFSLNFILFFLNERVRYSVIAFILPFYAVFTGFGIPVVRSVFMALFFIFSKFFYLKSNSLNILFFTAFVFLLISPDSLFSMSFQLSFMAVLGIILGIEVFKDYNNFVKLLGVSLFATLFTAPIVLYYFYNFSPTGIIATPIASLPLYPLLTLSVFNIFTGFNVDFLVKFMDFFGMIFIEVVKFFSSLGFYYTGFSPSLWVVGLYFVVILTVFLLKIRPVEKVLVSCFAFVVFLFLSKSDLRPKIYTIKTKVYPVVFVAREGKCYLFTDFEYRMALNLLRKEGCRVSYLLTENTEKFSDDFVLNFDRIITYTYQVNVDDVRFKKWVEPYLVINGREYFLKNDDRVIFLD
>NC_012438.1|WP_012673834.1|1582578_1583187_-|VTT-domain-containing-protein
MEILNFILHIDKYLAILIENYGTLVYLILFFIIFSETGFVITPFLPGDSLLFVLGAFSAVNLLDIKILYPLLLTAAILGNTVNFFIGYYFGEKILRNGKLVKKEYIQQTEEFFQKHGGKAVIISRFLPIFRTFVPFVAGIGKMDTHKFMFYNFIGGFSWITLFLLLGYFTGNIPFVKENITHFIYAIIILSFLPMVIKAIKK
>NC_012438.1|WP_012674420.1|1583269_1584901_-|chaperonin-GroEL
MAAKRLVYGDEARAKLKAGVDKLANAVKVTLGPRGREVILEKKWGSPVVTKDGVSVAKEIELADPYENMAAQLVKEVASKTADVAGDGTTTATILTQAIYEEGLKAIASGANPVYVKRGIDEAVKIIIEELKKISKPVSGRKEIEQVATISANNDPEIGKIIADAMEKVGKDGVITVEESKSAETVLEVTEGMQFDRGYLSPYFVTNPEKMEAVLENPYILIYEKKISNIRELLPVLEKVVQTNRPLLIIAEDVEGEALATLVVNHIKGVLKVCAVKAPGFGERRKAMLQDIAILTGGTAITEDLGIKLESVDLDMLGKADKVVVDKDSTTIIGGKGNPEDIKARIEQIKKQIETTTSEYDKEKLQERLAKLAGGVAIIKVGAATEAELKEKKDRVDDAVHATKAAVEEGIVPGGGVALYRASRALCNINEENPDKAWGIKIVRNACKVPIKQIAYNAGFEGSVIVEKIKDSENVNYGFNAATGEFVDMVEAGIIDPTKVVRTALQNAASIAGTMLTAECLVAEIKEKEEKLPNAGGMGDMDF
>NC_012438.1|WP_012674054.1|1584920_1585217_-|co-chaperone-GroES
MAKLKPLYDRVVVKRVEEEVAKTPAGIIIPDTAKEKPQIGEVIAVGEGRVLENGNILPLKVKVGDKVYFSKYAGNEVKVDGEELIILREDDILAIIEN
>NC_012438.1|WP_012674615.1|1585417_1585672_+|hemerythrin-family-protein
MEKLITMTDNLITGVEEMDKEHLELIEIINHVASLIKEGKKEEVKEFFINKFSAYIETHLKDEEKFMESIGYPELETHKKVHNI
>NC_012438.1|WP_012675014.1|1585702_1586623_-|TIGR01212-family-radical-SAM-protein
MYYRKFNDYLKEKYGGRVQKIAIDAGFTCPNRDGSKAAGGCTFCNNQSFSPYAMTKQTVKDQIEKSMEFYKNKFKNVKGFLAYFQAFTNTYAPVEKLKEVYDQAMSYPEVIGMSIGTRPDCVPEEVLDLIASYTVEKPEVWVEYGLQTAHFRTLRNINRAHGVSDFVDAVLRTKKRSGIKICAHVILGLPGEDYEDMMETAKLIAALPIDGIKIHPLHIVKHTAMEKQYYKGEIKELDLKEYAKLAVDFLSHLPKDIIVHRITGEASEDELIAPYWCSPKYKMEVLKAIEEEFKLRNATKNLKVLV
>NC_012438.1|WP_012674243.1|1586697_1588287_+|phosphoglycerate-dehydrogenase
MYKVLVTDDISPKGLEILNNDEMIDLDYQPEIKFNELLEIVKDYDAIITRSRTPVTKELLERAEKLKVVGRAGVGVDNVDLEEASRRGILVINTPGANTIGAAEITMAHLYAVLRKLHLAHKSMLEGQWDRKRFMGEELDGKVVGIIGLGNVGSQVAIRCKAAGAKVIAYDPYIPREKGERLGVELIDNLHDLIKMSDIITLHCPLTEETRNMIGKKEFDLMKKGVYFINCARGGIVDEDALYEAVKEGKIAGLGLDVFSKEPPDDRIRRLFEFPNISLSPHIGANTYESQDNVAIKIAQYVIAALKGQFVEVAVNAPFTITEGFENIKAYLELAEKLGSFLTQYAGGHFTEINIEVRGTIRDHIEPIVAFFLKGYLSPVLDTPVNIINAPFIAKERGINIIKSTREAGLNFKEFIKITAKAQDKEVVVGGTAFYDKLPRIMLVDNYWIDIEPSGVILMFENKDVPGVIGKLGTILARHNINIAGFRLGRLEKGKIALGALQLDDKLNEAVLEEIHQIPEIIKAKQVIL
>NC_012438.1|WP_012673524.1|1588301_1589408_+|inositol-3-phosphate-synthase
MSKKIRVAIAGVGNCASSLIQGIYYYKEKQNIEASGLMHEDIGGYKPWDIEIVAAWDIDARKVGFDVSQAIFAPPNCTTVFKRDIPHMGVKVRMGKVLDGYPEHMKNYPPENAFVLADAKEDSLETVVKVLIESKADVLVNYVPVGAEKAARFYAQACLEAGVSFINCMPTFIVSDDEWAKKFEDAGIPVIGDDIKSQVGATITHRVLTQLLLERGVKIDRTYQLNVGGNTDFLNMLERSRLETKKKSKTQAVTSLIPYGIDPRNVHIGPSDYVPWLKDKKLAFIRIEGRLFGDVPMNIELRLEVEDSPNSAGVAIDAIRCAKLAQDRGIGGPLYSISAYTMKHPPIQYKDWQARQMVEEFIAGIRER
>NC_012438.1|WP_012674492.1|1589410_1589629_+|DUF167-domain-containing-protein
MRIKVKVKPGSSKNEVKKIEENFYEVRCTTIPEKGKANDKVIELMSEYLDVPKSRIKIIKGHSSREKEIEIE
>NC_012438.1|WP_012673450.1|1590073_1591057_-|IS481-family-transposase
MKGIIGTPMYMTTLFPKKLSNKIKDIPLTKEAKKRLKWIQHYQDTKNISKTCRYFGISRTTFYKWFERYKKDGLEGLLDRPKTPKNTRKPTIRNQYREQIIKVRKQNPTWSKEKISAYLQEEKNIKVSPSTVYKVLKEEGLIERTKSIKIQNKRKKSIKKKRTKRGLQAQAPGDVVQIDVKHLNIAGATYYQFTAIDKYSRFCFARVYESKNSKKTKEFYIELNEYFEFEIKRVQTDNGSEFLGEFNKYLTDIGVEHYFSYPRSPKTNGVVERLIRTIEEELWLIEGLDYTLEEMNKKLRKYVRKYNFIRPHHSLGYKRPADIVYGV

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013497	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S35-C79	9797-9833	4	0.892
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013776	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S36-C73, * SEQUENCING IN PROGRESS *	23720-23756	4	0.892
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013496	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S28-C61	29046-29082	4	0.892
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013775	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S26-C73, * SEQUENCING IN PROGRESS *	14421-14457	4	0.892
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013499	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S39-C84	17239-17275	4	0.892
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	AP013498	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S38-C76	19012-19048	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013497	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S35-C79	9797-9833	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013776	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S36-C73, * SEQUENCING IN PROGRESS *	23720-23756	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013496	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S28-C61	29046-29082	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013775	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S26-C73, * SEQUENCING IN PROGRESS *	14421-14457	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013499	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S39-C84	17239-17275	4	0.892
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	AP013498	Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S38-C76	19012-19048	4	0.892
NC_012438_5	5.8\|788289\|28\|NC_012438\|PILER-CR	788289-788316	28	NZ_MN602039	Staphylococcus capitis strain APC2923 plasmid pJOS_01, complete sequence	49498-49525	5	0.821
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	MN693326	Marine virus AFVG_25M108, complete genome	5995-6031	5	0.865
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	MN693326	Marine virus AFVG_25M108, complete genome	5995-6031	5	0.865
NC_012438_5	5.8\|788289\|28\|NC_012438\|PILER-CR	788289-788316	28	NZ_CP049914	Vibrio sp. HDW18 plasmid p_unnamed1, complete sequence	450267-450294	6	0.786
NC_012438_5	5.8\|788289\|28\|NC_012438\|PILER-CR	788289-788316	28	NC_023007	Bacillus phage vB_BanS-Tsamsa, complete genome	129745-129772	7	0.75
NC_012438_5	5.8\|788289\|28\|NC_012438\|PILER-CR	788289-788316	28	MT254578	Bacillus phage Izhevsk, complete genome	127723-127750	7	0.75
NC_012438_3	3.7\|291300\|36\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	291300-291335	36	NZ_CP053316	Bacillus circulans strain GN03 plasmid unnamed, complete sequence	161500-161535	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_AP023191	Escherichia coli strain TUM18530 plasmid pMTY18530-1_lncHI2, complete sequence	52422-52457	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	MN539017	Salmonella sp. strain PJM1 plasmid pPJM1, complete sequence	77024-77059	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_CP039170	Salmonella enterica subsp. enterica serovar Goldcoast strain Sal-5364 plasmid pSal-5364, complete sequence	75007-75042	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_CP037959	Salmonella enterica subsp. enterica serovar Goldcoast strain R18.0877 plasmid pR18.0877_278k, complete sequence	50463-50498	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_CP039861	Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014880 plasmid p16-6773.1, complete sequence	245097-245132	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_CP048776	Salmonella enterica subsp. enterica serovar Agona strain SG17-135 plasmid pSG17-135-HI2, complete sequence	50463-50498	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	NZ_AP023198	Escherichia coli strain TUM18780 plasmid pMTY18780-1_lncHI2, complete sequence	52422-52457	8	0.778
NC_012438_11	11.8\|1083275\|36\|NC_012438\|PILER-CR,CRT	1083275-1083310	36	MN539018	Salmonella sp. strain OYZ4 plasmid pOYZ4, complete sequence	115921-115956	8	0.778
NC_012438_5	5.7\|788673\|38\|NC_012438\|CRISPRCasFinder,CRT,PILER-CR	788673-788710	38	NC_011249	Borrelia duttonii Ly plasmid pl36, complete sequence	25375-25412	9	0.763
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	MN693454	Marine virus AFVG_25M276, complete genome	5698-5734	9	0.757
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	MN693568	Marine virus AFVG_25M275, complete genome	126-162	9	0.757
NC_012438_16	16.12\|1494119\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494119-1494155	37	MN693568	Marine virus AFVG_25M275, complete genome	32781-32817	9	0.757
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	MN693454	Marine virus AFVG_25M276, complete genome	5698-5734	9	0.757
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	MN693568	Marine virus AFVG_25M275, complete genome	126-162	9	0.757
NC_012438_16	16.17\|1494446\|37\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1494446-1494482	37	MN693568	Marine virus AFVG_25M275, complete genome	32781-32817	9	0.757
NC_012438_5	5.1\|788277\|37\|NC_012438\|CRISPRCasFinder,CRT	788277-788313	37	AP014273	Uncultured Mediterranean phage uvMED isolate uvMED-GF-U-MedDCM-OCT-S26-C46, * SEQUENCING IN PROGRESS *	7768-7804	10	0.73
NC_012438_9	9.6\|1006341\|35\|NC_012438\|PILER-CR,CRISPRCasFinder,CRT	1006341-1006375	35	NZ_CP051207	Dolichospermum flos-aquae CCAP 1403/13F plasmid pAfl69, complete sequence	25910-25944	10	0.714
NC_012438_5	5.5\|788544\|32\|NC_012438\|CRISPRCasFinder,CRT,PILER-CR	788544-788575	32	NZ_CP031066	Bacillus sp. SH8-8 plasmid pl193, complete sequence	124061-124092	11	0.656
NC_012438_5	5.5\|788544\|32\|NC_012438\|CRISPRCasFinder,CRT,PILER-CR	788544-788575	32	NZ_CP031063	Bacillus sp. AR4-2 plasmid pl192, complete sequence	124061-124092	11	0.656
NC_012438_5	5.5\|788544\|32\|NC_012438\|CRISPRCasFinder,CRT,PILER-CR	788544-788575	32	NZ_CP018742	Bacillus cereus strain FORC_047 plasmid pFORC47_2, complete sequence	145754-145785	11	0.656

1. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013497 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S35-C79) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

2. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013776 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S36-C73, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

3. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013496 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S28-C61) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

4. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013775 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S26-C73, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

5. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013499 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S39-C84) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

6. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013498 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S38-C76) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

7. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013497 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S35-C79) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

8. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013776 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S36-C73, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

9. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013496 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S28-C61) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

10. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013775 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C68A-MedDCM-OCT-S26-C73, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

11. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013499 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S39-C84) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

12. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to AP013498 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G19, isolate: uvMED-CGR-C68A-MedDCM-OCT-S38-C76) position: , mismatch: 4, identity: 0.892

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaatct	Protospacer
**********************.*** *** **** *

13. spacer 5.8|788289|28|NC_012438|PILER-CR matches to NZ_MN602039 (Staphylococcus capitis strain APC2923 plasmid pJOS_01, complete sequence) position: , mismatch: 5, identity: 0.821

aagaagcttgtttcatttgttgaattcc	CRISPR spacer
tagaagcatgtctcatttgttgaagttc	Protospacer
 ****** ***.************ *.*

14. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693326 (Marine virus AFVG_25M108, complete genome) position: , mismatch: 5, identity: 0.865

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaattt	Protospacer
**********************.*** *** **** .

15. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693326 (Marine virus AFVG_25M108, complete genome) position: , mismatch: 5, identity: 0.865

cttaattcttcaacttcaaaagattcttcttgtaaac-	CRISPR spacer
cttaattcttcaacttcaaaaggttc-tctagtaattt	Protospacer
**********************.*** *** **** .

16. spacer 5.8|788289|28|NC_012438|PILER-CR matches to NZ_CP049914 (Vibrio sp. HDW18 plasmid p_unnamed1, complete sequence) position: , mismatch: 6, identity: 0.786

aagaagcttgtttcatttgttgaattcc	CRISPR spacer
caccagcttgtttcatctgttgaatagc	Protospacer
 *  ************.********  *

17. spacer 5.8|788289|28|NC_012438|PILER-CR matches to NC_023007 (Bacillus phage vB_BanS-Tsamsa, complete genome) position: , mismatch: 7, identity: 0.75

aagaagcttgtttcatttgttgaattcc	CRISPR spacer
aagaagcttgattcatttgttgttgcat	Protospacer
********** ***********   . .

18. spacer 5.8|788289|28|NC_012438|PILER-CR matches to MT254578 (Bacillus phage Izhevsk, complete genome) position: , mismatch: 7, identity: 0.75

aagaagcttgtttcatttgttgaattcc	CRISPR spacer
aagaagcttgattcatttgttgttgcat	Protospacer
********** ***********   . .

19. spacer 3.7|291300|36|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP053316 (Bacillus circulans strain GN03 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.778

tttttttaaattcataattatattatcacacttttg	CRISPR spacer
ttgttttaaatccataattatattataccaaactta	Protospacer
** ********.**************  **  .**.

20. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_AP023191 (Escherichia coli strain TUM18530 plasmid pMTY18530-1_lncHI2, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

21. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to MN539017 (Salmonella sp. strain PJM1 plasmid pPJM1, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

22. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_CP039170 (Salmonella enterica subsp. enterica serovar Goldcoast strain Sal-5364 plasmid pSal-5364, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

23. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_CP037959 (Salmonella enterica subsp. enterica serovar Goldcoast strain R18.0877 plasmid pR18.0877_278k, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

24. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_CP039861 (Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014880 plasmid p16-6773.1, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

25. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_CP048776 (Salmonella enterica subsp. enterica serovar Agona strain SG17-135 plasmid pSG17-135-HI2, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

26. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to NZ_AP023198 (Escherichia coli strain TUM18780 plasmid pMTY18780-1_lncHI2, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

27. spacer 11.8|1083275|36|NC_012438|PILER-CR,CRT matches to MN539018 (Salmonella sp. strain OYZ4 plasmid pOYZ4, complete sequence) position: , mismatch: 8, identity: 0.778

tgaatga--tgtgtttatatgaattatgaatgatgtgt	CRISPR spacer
--aaccaattgtgtttatattaaatatgaatgatggtt	Protospacer
  **. *  *********** ** ***********  *

28. spacer 5.7|788673|38|NC_012438|CRISPRCasFinder,CRT,PILER-CR matches to NC_011249 (Borrelia duttonii Ly plasmid pl36, complete sequence) position: , mismatch: 9, identity: 0.763

tatgtttgtgtatttatattttttttaattataattac	CRISPR spacer
gttttttgtatatttatattttttataattattgtttt	Protospacer
  * *****.************** ******* .** .

29. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693454 (Marine virus AFVG_25M276, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

30. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693568 (Marine virus AFVG_25M275, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

31. spacer 16.12|1494119|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693568 (Marine virus AFVG_25M275, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

32. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693454 (Marine virus AFVG_25M276, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

33. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693568 (Marine virus AFVG_25M275, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

34. spacer 16.17|1494446|37|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to MN693568 (Marine virus AFVG_25M275, complete genome) position: , mismatch: 9, identity: 0.757

cttaattcttcaacttcaaaagattcttcttgtaaac	CRISPR spacer
cttaattcttcaacttcaaatggttctcttgttagtt	Protospacer
******************** *.****..*  **. .

35. spacer 5.1|788277|37|NC_012438|CRISPRCasFinder,CRT matches to AP014273 (Uncultured Mediterranean phage uvMED isolate uvMED-GF-U-MedDCM-OCT-S26-C46, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 10, identity: 0.73

attccagaaaagaagcttgtttcatttgttgaattcc	CRISPR spacer
gtggcagaaaacaaacttgtttcatttgttagatctt	Protospacer
.*  ******* **.***************..**...

36. spacer 9.6|1006341|35|NC_012438|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP051207 (Dolichospermum flos-aquae CCAP 1403/13F plasmid pAfl69, complete sequence) position: , mismatch: 10, identity: 0.714

gtagatagtattacagttttgtataaagccatttt	CRISPR spacer
actatcaatattactgtttagtataaagccattta	Protospacer
.. . .*.****** **** **************

37. spacer 5.5|788544|32|NC_012438|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP031066 (Bacillus sp. SH8-8 plasmid pl193, complete sequence) position: , mismatch: 11, identity: 0.656

aagtcatctcctactaagtaaagagtattatc	CRISPR spacer
tttgcatctcctactatgtaaaaagtacctgt	Protospacer
    ************ *****.****..  .

38. spacer 5.5|788544|32|NC_012438|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP031063 (Bacillus sp. AR4-2 plasmid pl192, complete sequence) position: , mismatch: 11, identity: 0.656

aagtcatctcctactaagtaaagagtattatc	CRISPR spacer
tttgcatctcctactatgtaaaaagtacctgt	Protospacer
    ************ *****.****..  .

39. spacer 5.5|788544|32|NC_012438|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP018742 (Bacillus cereus strain FORC_047 plasmid pFORC47_2, complete sequence) position: , mismatch: 11, identity: 0.656

aagtcatctcctactaagtaaagagtattatc	CRISPR spacer
ttcgcatctcctactatgtaaaaagtacctgt	Protospacer
    ************ *****.****..  .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

46601 : 55320

Sulfolobus_monocaudavirus(16.67%)

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_012673847.1\|46601_47579_+	site-specific DNA-methyltransferase	A0A0N9PB81	Sulfolobus_monocaudavirus	8.2e-82	59.5
WP_012674624.1\|47583_49398_-	glutamine--fructose-6-phosphate transaminase (isomerizing)	A7IW18	Paramecium_bursaria_Chlorella_virus	4.1e-119	43.2
WP_012673970.1\|49401_50136_-	pyridoxine 5'-phosphate synthase	NA	NA	NA	NA
WP_012674732.1\|50138_50855_-	ribonuclease III	I3UKW9	Ostreococcus_lucimarinus_virus	2.5e-19	28.8
WP_012673575.1\|50844_52089_-	beta-ketoacyl-ACP synthase II	NA	NA	NA	NA
WP_012674704.1\|52094_52328_-	acyl carrier protein	M4QDG5	Prochlorococcus_phage	9.9e-10	56.7
WP_012673472.1\|52353_53094_-	3-oxoacyl-[acyl-carrier-protein] reductase	Q06VL0	Trichoplusia_ni_ascovirus	6.1e-21	32.9
WP_012674885.1\|53193_55320_+	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	7.5e-80	32.7

DBSCAN-SWA_2

320475 : 330425

Escherichia_phage(28.57%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012673735.1\|320475_321621_+	DegT/DnrJ/EryC1/StrS family aminotransferase	A0A2K9L470	Tupanvirus	1.8e-43	32.4
WP_012674717.1\|321625_322231_+	sugar transferase	NA	NA	NA	NA
WP_012674334.1\|322227_324108_+	polysaccharide biosynthesis protein	A0A1V0SAI8	Catovirus	3.7e-30	32.3
WP_041675768.1\|324117_324432_+	hypothetical protein	NA	NA	NA	NA
WP_012673846.1\|324468_325872_+	mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase	A0A1V0SH58	Hokovirus	4.5e-65	34.3
WP_012674977.1\|325905_326490_+	hypothetical protein	NA	NA	NA	NA
WP_012673617.1\|326500_327376_+	glucose-1-phosphate thymidylyltransferase RfbA	A0A291LA53	Escherichia_phage	1.4e-101	59.7
WP_012674271.1\|327395_327614_+	DUF2281 domain-containing protein	NA	NA	NA	NA
WP_012674930.1\|327613_328021_+	PIN domain-containing protein	NA	NA	NA	NA
WP_012674978.1\|328024_328594_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	1.5e-46	52.0
WP_012674763.1\|328593_329583_+	dTDP-glucose 4,6-dehydratase	A0A1D7XFE8	Escherichia_phage	6.0e-80	43.8
WP_012673792.1\|329579_330425_+	dTDP-4-dehydrorhamnose reductase	I7HXC9	Enterobacteria_phage	7.5e-31	32.8

DBSCAN-SWA_3

729242 : 736025

Staphylococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012674154.1\|729242_729560_+	metalloregulator ArsR/SmtB family transcription factor	A0A2H4J145	uncultured_Caudovirales_phage	3.5e-10	45.6
WP_012674138.1\|729552_729975_+	arsenate reductase ArsC	A0A2H4PQT9	Staphylococcus_phage	1.9e-19	47.0
WP_187145716.1\|729976_731278_+	arsenical efflux pump membrane protein ArsB	A0A2H4PQU3	Staphylococcus_phage	2.1e-117	54.1
WP_012673489.1\|731328_732210_+	TIM44-like domain-containing protein	NA	NA	NA	NA
WP_012674432.1\|732238_733507_+	insulinase family protein	A0A167R9K4	Powai_lake_megavirus	6.4e-26	22.6
WP_012674302.1\|733603_734161_+	DedA family protein	NA	NA	NA	NA
WP_012674077.1\|734164_735070_+	aspartate carbamoyltransferase catalytic subunit	M1HWF9	Paramecium_bursaria_Chlorella_virus	3.8e-33	36.3
WP_012674443.1\|735113_736025_+	ornithine carbamoyltransferase	M1HWF9	Paramecium_bursaria_Chlorella_virus	2.4e-27	30.9

DBSCAN-SWA_4

1111501 : 1120031

Synechococcus_phage(28.57%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012674183.1\|1111501_1112698_+	GDP-mannose 4,6-dehydratase	M1HGM9	Acanthocystis_turfacea_Chlorella_virus	1.2e-114	55.8
WP_012673475.1\|1112702_1113827_+	GDP-L-fucose synthase	M4R1H4	Synechococcus_phage	1.3e-86	48.6
WP_012674359.1\|1113840_1114614_+	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA
WP_012674090.1\|1114624_1115548_+	NAD(P)-dependent oxidoreductase	L7RCI0	Acanthamoeba_polyphaga_moumouvirus	6.5e-12	24.5
WP_012673883.1\|1115531_1116665_+	CDP-glucose 4,6-dehydratase	A0A222YY99	Synechococcus_phage	5.5e-13	23.5
WP_012673677.1\|1116648_1118070_+	lipopolysaccharide biosynthesis protein RfbH	A0A218MN59	uncultured_virus	2.4e-66	36.4
WP_012674632.1\|1118070_1119099_+	GDP-mannose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	8.0e-27	26.9
WP_012675075.1\|1119116_1120031_+	glycosyltransferase family 2 protein	A0A1V0S9B9	Catovirus	2.4e-06	32.8

DBSCAN-SWA_5

1225710 : 1234547

uncultured_Caudovirales_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012674783.1\|1225710_1228191_+	diguanylate cyclase	A0A127AWB9	Bacillus_phage	5.4e-21	40.1
WP_012674708.1\|1228221_1229811_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	4.5e-13	71.7
WP_012673746.1\|1229825_1230350_+	PAS domain-containing protein	A0A1B0V854	Salmonella_phage	9.3e-24	42.3
WP_012674702.1\|1230352_1231807_+	CZB domain-containing protein	A0A2H4J162	uncultured_Caudovirales_phage	9.0e-08	71.7
WP_012673642.1\|1231809_1233315_+	CZB domain-containing protein	A0A2H4J162	uncultured_Caudovirales_phage	9.0e-11	59.0
WP_012674750.1\|1233311_1233584_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	1.5e-09	52.2
WP_012674195.1\|1233599_1234547_+	chemotaxis protein CheV	Q56AR1	Bacillus_thuringiensis_phage	6.8e-41	30.5

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_012438

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection