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_011061	Prosthecochloris aestuarii DSM 271 plasmid pPAES01, complete sequence	0 crisprs	RT	0	0	1	0
NC_011059	Prosthecochloris aestuarii DSM 271, complete sequence	7 crisprs	Cas9_archaeal,PD-DExK,csa3,cas6,RT,cas3,DEDDh,cas2,cas1,cas5,cas7,cas6e,cse2gr11,cas8e,WYL,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5,cas4	1	13	4	0

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

41348 : 49979

Microcystis_virus(33.33%)

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012509578.1\|41348_43652_-	hypothetical protein	A0A1L2BY82	Clostridium_phage	1.1e-65	27.9
WP_012509580.1\|44167_44959_-	formylglycine-generating enzyme family protein	A0A7F1	Microcystis_virus	1.7e-45	51.6
WP_012509581.1\|45120_45417_-	hypothetical protein	NA	NA	NA	NA
WP_012509582.1\|45727_46741_-	RNA-directed DNA polymerase	A0A0N7AE80	Bacillus_phage	2.0e-62	37.7
WP_150084581.1\|46737_47094_-	diversity-generating retroelement protein Avd	A0A0N7ACE0	Bacillus_phage	2.6e-09	31.4
WP_012509584.1\|47071_47551_-	HRDC domain-containing protein	NA	NA	NA	NA
WP_150084583.1\|47800_48607_-	SUMF1/EgtB/PvdO family nonheme iron enzyme	A0A7F1	Microcystis_virus	1.0e-29	42.1
WP_081429357.1\|48895_49270_-	hypothetical protein	NA	NA	NA	NA
WP_012509586.1\|49385_49979_-	recombinase family protein	E5FFF9	Burkholderia_phage	6.4e-37	48.9

Anti-CRISPR protein detection

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

2. NC_011059

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CRISPR-Cas detection and classification

Crispr_ID: NC_011059_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_1

500712-500819

Orphan

Consensus_repeat	Method
AATTCGTGACAATTCGTGGACAGGAATC	CRISPRCasFinder

1 spacers

csa3

The CRISPR arrays of NC_011059_1

>merge|NC_011059|1|500712-500819|CRISPRCasFinder
AATTCGTGACAATTCGTGGACAGGAATCTGTGGATGGTAACCGGTAACTGGTCACGAATCACGAGCCGGATCCTTTCTTCAATTCGTGTCAATTCGTGGACAGGAATC

>NC_011059|1|1|500712-500819|CRISPRCasFinder
AATTCGTGACAATTCGTGGACAGGAATC	TGTGGATGGTAACCGGTAACTGGTCACGAATCACGAGCCGGATCCTTTCTTC
AATTCGTGTCAATTCGTGGACAGGAATC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_012505056.1\|497681_498710_-\|site-2-protease-family-protein	unknown	unknown	gnl\|CDD\|100081
NC_011059.1\|WP_012505049.1\|490010_490457_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_041702139.1\|499378_500281_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NC_011059.1\|WP_012505057.1\|498797_499253_-\|heme-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|379587
NC_011059.1\|WP_012505051.1\|491193_491886_-\|serine/threonine-protein-phosphatase	unknown	unknown	gnl\|CDD\|277316
NC_011059.1\|WP_012505068.1\|511369_511984_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012505061.1\|502793_503411_+\|flavodoxin-family-protein	unknown	unknown	gnl\|CDD\|223728
NC_011059.1\|WP_012505054.1\|493117_496678_-\|chromosome-segregation-protein-SMC	unknown	unknown	gnl\|CDD\|274008
NC_011059.1\|WP_012505064.1\|504933_506007_+\|SO_0444-family-Cu/Zn-efflux-transporter	unknown	unknown	gnl\|CDD\|223773
NC_011059.1\|WP_012505059.1\|500970_502599_+\|hydroxylamine-reductase	unknown	unknown	gnl\|CDD\|235391
NC_011059.1\|WP_012505053.1\|492435_493128_-\|HAD-family-hydrolase	unknown	unknown	gnl\|CDD\|319809
NC_011059.1\|WP_012505065.1\|506173_507238_+\|alpha/beta-fold-hydrolase	unknown	unknown	gnl\|CDD\|227121
NC_011059.1\|WP_012505050.1\|490547_491183_-\|endonuclease-III	unknown	unknown	gnl\|CDD\|223255
NC_011059.1\|WP_012505069.1\|512016_512649_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012505066.1\|507359_507995_+\|HAD-family-phosphatase	unknown	unknown	gnl\|CDD\|223710
NC_011059.1\|WP_012505052.1\|491909_492416_-\|transcription-antitermination-factor-NusB	unknown	unknown	gnl\|CDD\|234686
NC_011059.1\|WP_012505067.1\|508017_510858_-\|excinuclease-ABC-subunit-UvrA	unknown	unknown	gnl\|CDD\|234734
NC_011059.1\|WP_012505055.1\|496785_497661_-\|dihydropteroate-synthase	unknown	unknown	gnl\|CDD\|238380
NC_011059.1\|WP_012505062.1\|503490_504453_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379191
NC_011059.1\|WP_012505063.1\|504503_504866_+\|helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl\|CDD\|197713

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_012505056.1\|497681_498710_-\|site-2-protease-family-protein	gnl\|CDD\|100081	cd06160, S2P-M50_like_2, Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.	6.21919e-25
NC_011059.1\|WP_041702139.1\|499378_500281_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	2.22046e-10
NC_011059.1\|WP_012505057.1\|498797_499253_-\|heme-binding-domain-containing-protein	gnl\|CDD\|379587	pfam14376, Haem_bd, Haem-binding domain. This domain contains a potential haem-binding motif, CXXCH. This family is found in association with pfam00034 and pfam03150.	1.09913e-54
NC_011059.1\|WP_012505051.1\|491193_491886_-\|serine/threonine-protein-phosphatase	gnl\|CDD\|277316	cd00144, MPP_PPP_family, phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain. The PPP (phosphoprotein phosphatase) family is one of two known protein phosphatase families specific for serine and threonine. This family includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all eukaryotes, and in most bacterial and archeal genomes. Dephosphorylation of phosphoserines and phosphothreonines on target proteins plays a central role in the regulation of many cellular processes. PPPs belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	1.46961e-36
NC_011059.1\|WP_012505054.1\|493117_496678_-\|chromosome-segregation-protein-SMC	gnl\|CDD\|274008	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins].	0
NC_011059.1\|WP_012505061.1\|502793_503411_+\|flavodoxin-family-protein	gnl\|CDD\|223728	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only].	2.91765e-23
NC_011059.1\|WP_012505064.1\|504933_506007_+\|SO_0444-family-Cu/Zn-efflux-transporter	gnl\|CDD\|223773	COG0701, COG0701, Predicted permeases [General function prediction only].	1.41308e-52
NC_011059.1\|WP_012505059.1\|500970_502599_+\|hydroxylamine-reductase	gnl\|CDD\|235391	PRK05290, PRK05290, hybrid cluster protein; Provisional.	0
NC_011059.1\|WP_012505053.1\|492435_493128_-\|HAD-family-hydrolase	gnl\|CDD\|319809	cd07506, HAD_like, uncharacterized family of the haloacid dehalogenase-like (HAD) hydrolase superfamily. The haloacid dehalogenase-like (HAD) hydrolases are a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members include 2-L-haloalkanoic acid dehalogenase (C-Cl bond hydrolysis), azetidine hydrolase (C-N bond hydrolysis); phosphonoacetaldehyde hydrolase (C-P bond hydrolysis), phosphoserine phosphatase and phosphomannomutase (CO-P bond hydrolysis), P-type ATPases (PO-P bond hydrolysis) and many others. Members are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	4.02407e-43
NC_011059.1\|WP_012505065.1\|506173_507238_+\|alpha/beta-fold-hydrolase	gnl\|CDD\|227121	COG4782, COG4782, Uncharacterized protein conserved in bacteria [Function unknown].	6.96615e-52
NC_011059.1\|WP_012505050.1\|490547_491183_-\|endonuclease-III	gnl\|CDD\|223255	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair].	1.12316e-99
NC_011059.1\|WP_012505066.1\|507359_507995_+\|HAD-family-phosphatase	gnl\|CDD\|223710	COG0637, COG0637, Predicted phosphatase/phosphohexomutase [General function prediction only].	7.17207e-48
NC_011059.1\|WP_012505052.1\|491909_492416_-\|transcription-antitermination-factor-NusB	gnl\|CDD\|234686	PRK00202, nusB, transcription antitermination factor NusB.	9.24152e-47
NC_011059.1\|WP_012505067.1\|508017_510858_-\|excinuclease-ABC-subunit-UvrA	gnl\|CDD\|234734	PRK00349, uvrA, excinuclease ABC subunit UvrA.	0
NC_011059.1\|WP_012505055.1\|496785_497661_-\|dihydropteroate-synthase	gnl\|CDD\|238380	cd00739, DHPS, DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.	5.71196e-103
NC_011059.1\|WP_012505062.1\|503490_504453_+\|hypothetical-protein	gnl\|CDD\|379191	pfam13449, Phytase-like, Esterase-like activity of phytase. This is a repeated domain that carries several highly conserved Glu and Asp residues indicating the likelihood that the domain incorporates the enzymic activity of the PLC-like phospho-diesterase part of the proteins.	0.00596372
NC_011059.1\|WP_012505063.1\|504503_504866_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|197713	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor.	2.38395e-20

>NC_011059.1|WP_041702139.1|499378_500281_-|class-I-SAM-dependent-methyltransferase
MLQLKTASAEALCNMRIRKDFPPEWKTVDELEKATDTIVELFLNERFEVSKSLGPGFLIPELIDRSIRTDDQEIMDNPAVASGEKLAMIRSLDRLNSMMMIYPHHIDLIEPFVRTVAAKKKRPATILELAGGAGGLALALAEEIKKGNLHAEIKGSDIIAEYVDAANEAAEKNNLPATFSLIDALTSDHAGDTEVDIILISQSLHHFTPGQIAVMIEKSRSWGASFFLALDGHRSPELLCGVPLMAMLQGKKNFMLDGYTSARKFYSEAELQIIAETATRKGNYSITFSWPLTVLSVAFG
>NC_011059.1|WP_012505057.1|498797_499253_-|heme-binding-domain-containing-protein
MNIGKLLGGAIVLLILIQLVPYGRDHSNPPVTGEPVWNSERTQELFSRSCRDCHSNETVWPWYTHIAPASWLAQFDVEHGREKFNVSEWGRPGKNEGDEAAEEVRSGKMPPFFYFPLHPEAKLSETERQELVDGLIATFGEEHGHDNEEKE
>NC_011059.1|WP_012505056.1|497681_498710_-|site-2-protease-family-protein
MRDNPSTRREILAEQNYLLHITLLCITLLTTLWAGAFWTGHQVRIDSLVNFFKDLSYGKEYAAALLIFLGVHEFGHFFAALSHRIRTTLPYFIPVPPMPFLLNLGTLGAVIRIKEKIPDTKSLFDTGVSGPLSGFIIALGLLIYGFTHLPPIDYIYAIHPEYRSLGGIPATAPAETLFLGKNLLYILLEEIIRPSQLPPMTEMYHYPFLFAGWLGCFVTALNLLPVGQLDGGHITYAMFGKKGHLLTARIFLFFIIVLGLPSFLFIITELILPQQGQLLAPWLIEWSWPGWILWAFILYKVIGVEHPATQIKQPLSTKRTLLGWIAIAIFILCFTPVPFGVI
>NC_011059.1|WP_012505055.1|496785_497661_-|dihydropteroate-synthase
MQQEPRIQRLLSCRGHVLDFRKKPCVMGILNTTPDSFYDGGRHRDKALHHALSMISYGADIIDIGGESTRPGAEAVSAEEEIRRTAPLIRELKKHTSIPISIDTWKAEVAEEALQCGASIVNDISGFTFDEALPDVCKKYQAAVILMHTTDRPDQMQWSTETGGAERDIVALVKTALEASVANAKAHGIDQVVIDPGFGFGKSVRENFILLKRLHEFHSLGLPVLAGLSRKSFLGHAVQTHNAPLPSADDRLAATVSANTIALFNGADILRVHDVSEAVATAAIIKAVGNA
>NC_011059.1|WP_012505054.1|493117_496678_-|chromosome-segregation-protein-SMC
MYLSKIELFGFKSFAHRITIRFDKGLTAIVGPNGCGKTNVVDAIRWVLGEQKSALLRSTKMENIIFNGTRKLKPLSLSEVSLTIENTRNVLPIEYSEVTITRRIYRSGESEYLLNQVPCRLKDILDLFADTGMGSDAYSVIELKMIEEIISNKSDERLRLLEEAAGITRYKQRRKQTFRQLEITARDLERVDDVLSEVSKKVRNLKTQVRKAEKYHVLKTRLRELDLMLARLNLEEYDAKLEPLKLKIKAQNRENQTLSTTIALKDSRLQNDELRQLEQEQSLSEAQKIINTENERIHALEKKQLQLQEQEHGLKETIVRFSSALIEKKNKTQELLDRQQELKGSLAPLEAQCDKENDALQKLNAQLDTQNSRLNAARSELRDIRSTINNADKQSAEHQIARHKIENSRDYLNTALCTMEQKTGTLQASVENNSAKQKGLHDKQARLSKEIDETRKEIGSMQAQKLDIARQIERNKEKLLEYRAEKDRLHNRIILANSILDNYEGLPEGIAYLETNPETKRGYGCLSDLISLDSVHRKAVNAALGESLGYYVCATTQEARAGIECLTRADKGKISFLVLERLAAHDPEEVQMMESATPVLSLIDAPETIRKALWLLLRYAYITQDLATAETLSRQHPSCTFVTPEGERIDPKGIIHGGSSRESEGLRLGKKMERDELLADKERCMQRIQDEEKTLQALNRSLQEIPLAEKERHLQALVNERNVLEKQLTQIDIEQQSRARELEQIHREIVEARRKLQTTEQELTSLLPKIKAIEEKNNERYTLLREAQHKIGRSEEEHKRLSKEVQNRQNSYREAQLELDKIRYKITSGLHNIASFAEESDVMQQEISTAQDSVTRIRAEVESCGKELECMLVESAKRQQQSTELEARYRECKILNQETRNAVRELRRSHEIGLQLSAELQQKQMELERGIDNLITAVQTRYSCNLQDIDTEPPLDFNKDDAEKTATDIGDQLQKFGAVNELALEEYEQEKERLDFLTGQKEDLLGAERQLRTTIDEINKTALKKFEDTYNTVRGNFISIFRELFEETDEADLMLLSGDDPLEAHISIIAKPRGKKPLSIEQLSGGEKALTALSLLFSIYLVKPSPFCILDEVDAPLDDANVDRFIKLLKKFENNTQFIIVTHNKKTMASSRALYGVTMEEEGVSKLIPVKLEKKHAERSSGNDAE
>NC_011059.1|WP_012505053.1|492435_493128_-|HAD-family-hydrolase
MLNKLVLFDIDGTLLTVGNINRQTLIDALIEVYDTEGSARQHNFAGKMDSVIIYEVLQSTGLTDKEIALGFEQVKQTYIELFRQQAKADDIILMNGIPELLASLSERDDILLGLLTGNFEGSGRHKLHLPSINHYFSFGAFADDARHRNDLPAIAVERARNITGKTFTPQEVIIIGDTEHDIRCARAIEARCIAVATGNYSSETLLEHKPDALFEDFSDTEKVIRSIVSF
>NC_011059.1|WP_012505052.1|491909_492416_-|transcription-antitermination-factor-NusB
MKAHRRHIREKIVQALYTLDVRDTDTATAGDWLITPEISKDPKAIRFFKQLLGAIVDNREEIDQYISKHTFNWDMSRIAIIDKNILRMAMAEILYFEDIPPKVSINEAIEIAKKFNSTDKSSKFVNGILDAVYNDLNKSGKINKCGRGLIDQSSNLKKNKEKSPSDDQ
>NC_011059.1|WP_012505051.1|491193_491886_-|serine/threonine-protein-phosphatase
MPESISQNARIIAVGDIHGCIASLKKLCRQLELQPSDQLVFLGDYIDRGKNAQAVIDFLIDLRRSFTCFFLMGNHELMLLDSLKTGNASDWLRNGGKETLQSYAVKSARDLPLSHIGFLQSCHYYLESKDFIFVHGGLDPDMSIKNNIGYLKPADFCWMRTHLRSSYLETNRYNWEKTVVCAHTPAPEIINLKKLIAIDTGCVYKDDPSLGKLSAIILPSRQLVQTVNID
>NC_011059.1|WP_012505050.1|490547_491183_-|endonuclease-III
MNVAEKIAFINEALGNKYPSPKSELQYQSPYQLLIATMLAAQSTDKKVNMITETLFKVCPDAESMSRTDPEEIRSMVRSINYNNTKAKNILAASCLLMENFGGQVPDSREELETLPGVGRKTANVVLSNAFGKPVMPVDTHVHRVSNRIGLVATDNPRDTEDGLIAIIPENRVIDFHHYLLLHGRYTCKARKPLCSECPLVPACDYPAKNY
>NC_011059.1|WP_012505049.1|490010_490457_+|hypothetical-protein
MRDHTPDFKLQDLSSDNKARIKETVQQLLTRLAGDGQLTADSLLEFWIEVPGMKRRRGTYRGGFLMPDSFVYITDYFQTDGNQLVAAGGYEDAVKAWDDLLDELYYQVEIFTSQVDHSKGITLELWTGHRNRPEGEWIYAVDRKIELI
>NC_011059.1|WP_012505059.1|500970_502599_+|hydroxylamine-reductase
MGMYCDQCQESVKGTGCITRGVCGKSDVTAKLQDTLVYALEGVALCAEASGNKLDPDHGRFLSQALFITVTNTNFDDDAIVDKIFEALALRDELRSQLTDTLPYDAVNWLGESKEDFVRKAETAGIRALSHNDDLRALKSLALYGLKGLAAYADHAEVLGYVDHAIYDFYVTALAALAKDLDGDHLTALVMETGSIAVKAMALLDKANTETYGNPVVTTVKTGVGSRPGILISGHDLKDMDELLKQTEGSGVDVYTHCEMLPAHYYPAFQKYSHCIGNYGSSWWSQDKEFESFNGPILMTTNCIVPVRESYRNRMFTTGNAGYEGVQHISGGENGSVKDFSALVELAKTCQPPVELENGEIVGGFAHNQVVALADKVVDAVKSGAIKRFVVMAGCDGRHKSRQYYTDVAEALSEETVILTAGCAKYRYNKLQLGDIGGIPRVLDAGQCNDSYSLAVIALKLKEVFGLDDINDLPISYDIAWYEQKAVAVLLALLSLGVKGIRLGPTLPEFLTPAVVSVLVDKFDIKPIGTVQDDVLAMMAGQ
>NC_011059.1|WP_012505061.1|502793_503411_+|flavodoxin-family-protein
MSDTPEIIALVGSYRKGGMNDQIVDAILAGARERGARIRKIYLSDREISFCSNCRSCTQREGRERGICVIDDGMEKLLQEAEHANGLILASPVNAGTVTAVMKRFIERLIGYTWWPWGAAAPKVRRAERTRHAVLVVTSAAPSIMARLGGSAKALAELKGAARLLGAAVSGVLWVGLAARSEHQQISRRAVQKAHRLGADLVGHS
>NC_011059.1|WP_012505062.1|503490_504453_+|hypothetical-protein
MKQLFSQFSLVVTMMFFFGCAASHTAARSEKTSFAQGISGLVRIDSSRYLAVHDALSFEDGPRVSLLRVSSSAGPIIVPVTIDDWMDRDGRSSDLESLCAIPSRPNEFLMAESGRWEGRFGRLFHIRFDPATHRAAVLGVARLPNLCDNNPEQVGDQYEGMACLDDGSGSVVLILGERGGSARYPSGVLRWVTFDLRTHTLLSTQDGLHGIRVDAPGGWPDHRKNRDISDLFVASDGSLWASAAWDSGDAGPFSSLVYRIGYLRQNSPVPVVVNRRLHVWRTCDGIKVEGVAAPPSVLHGAVISVGSDDEHYGGVWRPLR
>NC_011059.1|WP_012505063.1|504503_504866_+|helix-turn-helix-transcriptional-regulator
MINSKNDLCQSRCFHPELVSRVKESVHDDALLQDLSQLFRVLGDHTRIRILDALSHAELCVCDLSALLEMNQSAISHQLRLLRAAKIVKSRKEGKNVYYSLDDMHIQALMMLGLEHVMES
>NC_011059.1|WP_012505064.1|504933_506007_+|SO_0444-family-Cu/Zn-efflux-transporter
MESVLDRLPGVLSASWGVLLESAPFMLLGFFFAGLLKAFLPDSFITGHLGGRSIGGIVKASLLGIPLPLCSCGVLPAAAGLKKQGAGKGAVTSFLISTPETGIDSIAVTWSLLDPLMTVVRPVVSFVTAVAAGIAVSLSERDHKHELSEEDEDGQAKPSTSTCCCSSRSSQAGKSSFRDKFSGGMRFAFHDLLGDIGKWFLFGVLLSGVISVFIDAAFLERYLSNEYLSMLVMLIIAVPLYVCATASTPIAAALALKGIAPGAVLVFLLAGPATNVASFSVVASMIGRKAALIYLAVIITMSCIAGLLVNQLYVMSGMDISRWLVGQQAHEPGILSSGAAMLLLALIGASFFDRKKA
>NC_011059.1|WP_012505065.1|506173_507238_+|alpha/beta-fold-hydrolase
MKKSRSGAIIFCVLSLLLFNGCSSGKEALEQFSGRRVQLFFATDRNDTGRAEPDSRFGSERDSLHYGTTVISFPADHRIGQLESALLADDALEHVLLKEVNSMSEERFFGLLTQSVNAYDKQELLVFVHGFNMSFAKASRRFGQIVSDLGYRGCPVYFSWPSRGAINRYAADKTCVEWSTLNLECFLEQLAVRSGSRKIILTAHSMGGRALTYAFSSLLQRRPDLADRFGALLLYAPDIDSGVFRRDIAPVLSASGVQVTLYVSGRDRALKVSRRLNGYERVGYVEDRPLIENGVETIDVGNVKAGFSGHSYYHQSRPVLSDMFYLINEGLPADQRFSLEPVDTSDGRYWRFRR
>NC_011059.1|WP_012505066.1|507359_507995_+|HAD-family-phosphatase
MIEVVLWDNDGLLIDSEAVFFDLTRQVFAGAGYDLSAHYWGIEYLGKARRTREVAEEFGMASRLIDEVIELRDQRFFEALQRPLPLRPGVRDTLDSLRGKVRHGLVTGSPRDKVDLMHHHSGLKGYFDVIVTCDDVTQTKPHPEPYRKAMERFGLDPARCLAVEDSERGLASAHAAGISCIVVPNPLTRIQQFKDAYAVEEEVSGVMKYLG
>NC_011059.1|WP_012505067.1|508017_510858_-|excinuclease-ABC-subunit-UvrA
MSAFSHIIIRGARVHNLKNISLDIPRNRLVVITGLSGSGKSSLAFDTIYAEGQRRFMETLSAYARQYIGNIERPDVDSIDGLSPVISIDQKSTSRSPRSTVGTITEIHDFIRLLYAKAGRRYDPATGHMLQKQSEEFITESILKLPEGTKVQLLAPLVTGRKGHYRELFDTLLKKGFLRIRIDGEFREMEKGMQIERYKSHTIELVVDRLVITSGVNERLREAVKLAVGMSEHKSSVICAPFESDEKEQFFSTKYAYSDGSVPIDTLAPNNFSFNSPYGACPECNGLGEIRQLSADLMVPDKSLSINQGAIEPFGKPGKRNLWQVIRAIAKTFNFDLDTPFSKIPKAAADILLNGSGKKTFDVTYSYAGKEHLYPQDFPGAISYVRELQKNSGTAKITEWAESFMFRQPCPECGGARLRKESLQVKIGDKNIHELESIPLPESLQLFRELPAKLTEKENLIATPILHEITKRIEFLLNVGLDYLALNRSSQTLSGGEAQRIRLASQLGSQLSGVLYVLDEPSIGLHQRDNNKLITSLQHLRDIGNTVLVVEHDKDTMLAADEIIDLGPGAGEHGGELVAQGLADKLNPHSLTAQYLNGQLEVCTEKADRTEESENRFITLRGCRGNNLKGIDVSFPLARLICVTGVSGSGKSTLINETLYPVLARHFYRSKIQTYPYESIEGLKLLDKVVNVDQSPIGRTPRSNPATYTGAFTFIRDFFARLPEAQIRGYKPGRFSFNVKGGRCETCQGAGTKKIEMNFLPDVYVECDTCKGKRYNRETLQVRYKGSSIADVLDMTVEEALGFFEDFPRIRRILSTMQSVGLGYIKLGQQSPLLSGGEAQRIKLSAELAKIQTGNTLYILDEPTTGLHFQDIQHLLDVLQKLVDKGNTVIVIEHNLDIIKNADWIIDLGPEGGNKGGNLVAEGTPEVIAAAQCSHTGKFLAAELKP
>NC_011059.1|WP_012505068.1|511369_511984_+|hypothetical-protein
MITLKKKLGVLALSAAMSIPFSSSAHAAQTSGSTDIKVNLPDIIILHYISDITLNFGSDIGQSANESVASWTVAWDGATSDGSGELAVGNLDDTSNELGDISPIDVTLPNVWAIRGLSSSGTATVEITGGNLTLANSSSSIALSDFTVSGSGNTSASITADLNGLHKTTATVGDVNLKMDVSAAALSGEYDTSGTEYTITATTI
>NC_011059.1|WP_012505069.1|512016_512649_+|hypothetical-protein
MLPIQRQGVFLRSSRNGGFLRVLLLAGVLLVLFWPALSFSAPAITFRKNVTLDDMRPGDVFSSNSAAQHADEGYFEPEAGWSGDVGQDGFGVYDLSEVYLSLTFTRWVNDAESNRAWLWRYRQQKNEHPSRPSFSVSFSIEDEYGNPGRLSHQSDPFSWVGASVIDDAVADESNNRRWIFFGSARLEFNLGNATRSGLYRGVLTTTLTYL

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Crispr_ID: NC_011059_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_2

1536024-1538308

TypeI-E

I-E,II-B

Consensus_repeat	Method
GAAACACCCCCACGCCTGTGGGGAAGAC	CRISPRCasFinder
GAAACACCCCCACGCCTGTGGGGAAGAC	CRT
AACACCCCCACGCCTGTGGGGAAGAC	PILER-CR
GAAACACCCCCACGCCTGTGGGGAAGAC	PILER-CR

37 spacers

cas2,cas1,cas5,cas7,cas6e,cse2gr11,cas8e,cas3,DEDDh,WYL

The CRISPR arrays of NC_011059_2

>merge|NC_011059|2|1536024-1538308|CRISPRCasFinder,CRT,PILER-CR,PILER-CR
AGAACCCCCCCACGCCTGTGGGGAAGACTCCTTCCGGCGTGACGAAGGTGCAGGATGGGTGAGAACCCCCCCACGCCTGTGGGGAAGACTGTGGATCTTGCTGATCTTGGTGCTTCGGGGTAGAAACACCCCCACGCCTGTGGGGAAGACTCGACAAGCGCTACTATGAAGATGGGGGGCTTGGAAACACCCCCACGCCTGTGGGGAAGACAATCGCACTGATGATGTGAATGGGTCTTTTGAGGAAACACCCCCACGCCTGTGGGGAAGACAGAAAACCCGGCCACCTCAACGCGAATCAAGGAGAAACACCCCCACGCCTGTGGGGAAGACGACGCGGCTTGCCTTGAGGTCTGGGCGAAGGCAGAAACACCCCCACGCCTGTGGGGAAGACGGAAATAGAGACCGGCAGCAGGAACGCGCACTGGAAACACCCCCACGCCTGTGGGGAAGACAGGGCAAGAATGAAAATGGATCGTGGCCGCTGGGAAACACCCCCACGCCTGTGGGGAAGACGTGAGCTACGCCCACTTCGGCACGCTCACGCAGGAAACACCCCCACGCCTGTGGGGAAGACTTGGCCCACTGCTCGAAATGCGCAACGATGCCGGAAACACCCCCACGCCTGTGGGGAAGACCTTGCAGTCAACAACTCTTACAACTCTCATTGAGAAACACCCCCACGCATGTGGGGAAGACTCCCCTCCAGCGCATCAAGCCACCCCGCTACCGGAAACACCCCCACGCCTGTGGGGAAGACGGAGTAGACTGGTCACGTGTGACCTCAACAGTAGAAACACCCCCACGCCTGTGGGGAAGACCTGCTACCAAGTTTTATGGTGAAGTAATATTTAGAAACACCCCCACGCCTGTGGGGAAGACATGGGCTGAATACTTTGCACGTGCGGTCGGGCAGAAACACCCCCACGCCTGTGGGGAAGACGATGCTTCGGCGCTTGAGGAGACGACAGGAAAGGAAACACCCCCACGCCTGTGGGGAAGACTCCAGAAACCTCTCATACATCTCTGCCCTCTTGGAAACACCCCCACGCCTGTGGGGAAGACTCTGTCTTACTCTGATGAGCTCGTCGAGGAGAAGAAACACCCCCACGCCTGTGGGGAAGACCCGCAGCAGATCTGAGATGCGAGCTGTCGAGTGGAAACACCCCCACGCCTGTGGGGAAGACGGCGGATGATGTCATCTATAGGGGCCTGTGTCGGAAACACCCCCACGCCTGTGGGGAAGACGATACAATCAAAACAGTCATGCTCCTCAAACTGGAAACACCCCCACGCCTGTGGGGAAGACCGAAGCGTTCGCTCTAAGCCTGAACGAATACTTGAAACACCCCCACGCCTGTGGGGAAGACCGTAAATCCTTAACCTCTCGTTGATGAGCGGTGGAAACACCCCCACGCCTGTGGGGAAGACGATCTATTACTTTGGCTGAACCGCGCCGGTCTGGAAACACCCCCACGCCTGTGGGGAAGACAATTCCTTTATCTCTGGCGCAGACACGATGCCGGAAACACCCCCACGCCTGTGGGGAAGACCGAATATCTGGCAAAGCGAGAGATGATTCTGCGGAAACACCCCCACGCCTGTGGGGAAGACTCTGCTTATCGCCTGCTGCGTCTTACTTTTGAGGAAACACCCCCACGCCTGTGGGGAAGACATCTGGTACAGGGCTAACTCAGGAGGGCATGAGGAAACACCCCCACGCCTGTGGGGAAGACTTCCGGCAGTAGTCAAGCACAACCCGTACTGTAGAAACACCCCCACGCCTGTGGGGAAGACTTTTTATATGGAGCGAGACTCTGCTGCAGAAGGGAAACACCCCCACGCCTGTGGGGAAGACGCATTCTTTCCTGACCCCATCCAGCACAGCGTAGAAACACCCCCACGCCTGTGGGGAAGACACGCTAAAGGTAACGCTTTTATCGGAGGGTCAGGAAACACCCCCACGCCTGTGGGGAAGACGGTGTCGGCGCATGGGAGCGTGAACTTGAAGCAGAAACACCCCCACGCCTGTGGGGAAGACGCGTCCTGAGATCTTCAGCGTACAGCGCCTCAGGAAACACCCCCACGCCTGTGGGGAAGACAACCTTCTCCCCATCAGCGGTGTAAGCAATCGAGAAACACCCCCACGCCTGTGGGGAAGACTTGGTAGTAGTGACCAGGCTAACCAGATGTATGGAAACACCCCCACGCCTGTGGGGAAGACTTCCATCATTCACTCCTGTCAAATTTTAAAAAGGAAACACCCCCACGCCTGTGGGGAAGAC

>NC_011059|2|2|1536024-1538308|CRISPRCasFinder
AGAACCCCCCCACGCCTGTGGGGAAGAC	TCCTTCCGGCGTGACGAAGGTGCAGGATGGGTG
AGAACCCCCCCACGCCTGTGGGGAAGAC	TGTGGATCTTGCTGATCTTGGTGCTTCGGGGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TCGACAAGCGCTACTATGAAGATGGGGGGCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATCGCACTGATGATGTGAATGGGTCTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AGAAAACCCGGCCACCTCAACGCGAATCAAGGA
GAAACACCCCCACGCCTGTGGGGAAGAC	GACGCGGCTTGCCTTGAGGTCTGGGCGAAGGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GGAAATAGAGACCGGCAGCAGGAACGCGCACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AGGGCAAGAATGAAAATGGATCGTGGCCGCTGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GTGAGCTACGCCCACTTCGGCACGCTCACGCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGCCCACTGCTCGAAATGCGCAACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CTTGCAGTCAACAACTCTTACAACTCTCATTGA
GAAACACCCCCACGCATGTGGGGAAGAC	TCCCCTCCAGCGCATCAAGCCACCCCGCTACCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGAGTAGACTGGTCACGTGTGACCTCAACAGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	CTGCTACCAAGTTTTATGGTGAAGTAATATTTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ATGGGCTGAATACTTTGCACGTGCGGTCGGGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GATGCTTCGGCGCTTGAGGAGACGACAGGAAAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCCAGAAACCTCTCATACATCTCTGCCCTCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGTCTTACTCTGATGAGCTCGTCGAGGAGAA
GAAACACCCCCACGCCTGTGGGGAAGAC	CCGCAGCAGATCTGAGATGCGAGCTGTCGAGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGCGGATGATGTCATCTATAGGGGCCTGTGTCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATACAATCAAAACAGTCATGCTCCTCAAACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAAGCGTTCGCTCTAAGCCTGAACGAATACTT
GAAACACCCCCACGCCTGTGGGGAAGAC	CGTAAATCCTTAACCTCTCGTTGATGAGCGGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATCTATTACTTTGGCTGAACCGCGCCGGTCTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATTCCTTTATCTCTGGCGCAGACACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAATATCTGGCAAAGCGAGAGATGATTCTGCG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGCTTATCGCCTGCTGCGTCTTACTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	ATCTGGTACAGGGCTAACTCAGGAGGGCATGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCGGCAGTAGTCAAGCACAACCCGTACTGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTTTTATATGGAGCGAGACTCTGCTGCAGAAGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GCATTCTTTCCTGACCCCATCCAGCACAGCGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ACGCTAAAGGTAACGCTTTTATCGGAGGGTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGTGTCGGCGCATGGGAGCGTGAACTTGAAGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GCGTCCTGAGATCTTCAGCGTACAGCGCCTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AACCTTCTCCCCATCAGCGGTGTAAGCAATCGA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGTAGTAGTGACCAGGCTAACCAGATGTATG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCATCATTCACTCCTGTCAAATTTTAAAAAG
GAAACACCCCCACGCCTGTGGGGAAGAC

>NC_011059|2|1|1536024-1538308|CRT
AGAACCCCCCCACGCCTGTGGGGAAGAC	TCCTTCCGGCGTGACGAAGGTGCAGGATGGGTG
AGAACCCCCCCACGCCTGTGGGGAAGAC	TGTGGATCTTGCTGATCTTGGTGCTTCGGGGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TCGACAAGCGCTACTATGAAGATGGGGGGCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATCGCACTGATGATGTGAATGGGTCTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AGAAAACCCGGCCACCTCAACGCGAATCAAGGA
GAAACACCCCCACGCCTGTGGGGAAGAC	GACGCGGCTTGCCTTGAGGTCTGGGCGAAGGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GGAAATAGAGACCGGCAGCAGGAACGCGCACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AGGGCAAGAATGAAAATGGATCGTGGCCGCTGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GTGAGCTACGCCCACTTCGGCACGCTCACGCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGCCCACTGCTCGAAATGCGCAACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CTTGCAGTCAACAACTCTTACAACTCTCATTGA
GAAACACCCCCACGCATGTGGGGAAGAC	TCCCCTCCAGCGCATCAAGCCACCCCGCTACCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGAGTAGACTGGTCACGTGTGACCTCAACAGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	CTGCTACCAAGTTTTATGGTGAAGTAATATTTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ATGGGCTGAATACTTTGCACGTGCGGTCGGGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GATGCTTCGGCGCTTGAGGAGACGACAGGAAAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCCAGAAACCTCTCATACATCTCTGCCCTCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGTCTTACTCTGATGAGCTCGTCGAGGAGAA
GAAACACCCCCACGCCTGTGGGGAAGAC	CCGCAGCAGATCTGAGATGCGAGCTGTCGAGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGCGGATGATGTCATCTATAGGGGCCTGTGTCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATACAATCAAAACAGTCATGCTCCTCAAACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAAGCGTTCGCTCTAAGCCTGAACGAATACTT
GAAACACCCCCACGCCTGTGGGGAAGAC	CGTAAATCCTTAACCTCTCGTTGATGAGCGGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATCTATTACTTTGGCTGAACCGCGCCGGTCTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATTCCTTTATCTCTGGCGCAGACACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAATATCTGGCAAAGCGAGAGATGATTCTGCG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGCTTATCGCCTGCTGCGTCTTACTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	ATCTGGTACAGGGCTAACTCAGGAGGGCATGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCGGCAGTAGTCAAGCACAACCCGTACTGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTTTTATATGGAGCGAGACTCTGCTGCAGAAGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GCATTCTTTCCTGACCCCATCCAGCACAGCGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ACGCTAAAGGTAACGCTTTTATCGGAGGGTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGTGTCGGCGCATGGGAGCGTGAACTTGAAGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GCGTCCTGAGATCTTCAGCGTACAGCGCCTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AACCTTCTCCCCATCAGCGGTGTAAGCAATCGA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGTAGTAGTGACCAGGCTAACCAGATGTATG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCATCATTCACTCCTGTCAAATTTTAAAAAG
GAAACACCCCCACGCCTGTGGGGAAGAC

>NC_011059|2|1|1536026-1536905|PILER-CR
AACCCCCCCACGCCTGTGGGGAAGAC	TCCTTCCGGCGTGACGAAGGTGCAGGATGGGTGAG
AACCCCCCCACGCCTGTGGGGAAGAC	TGTGGATCTTGCTGATCTTGGTGCTTCGGGGTAGA
AACACCCCCACGCCTGTGGGGAAGAC	TCGACAAGCGCTACTATGAAGATGGGGGGCTTGGA
AACACCCCCACGCCTGTGGGGAAGAC	AATCGCACTGATGATGTGAATGGGTCTTTTGAGGA
AACACCCCCACGCCTGTGGGGAAGAC	AGAAAACCCGGCCACCTCAACGCGAATCAAGGAGA
AACACCCCCACGCCTGTGGGGAAGAC	GACGCGGCTTGCCTTGAGGTCTGGGCGAAGGCAGA
AACACCCCCACGCCTGTGGGGAAGAC	GGAAATAGAGACCGGCAGCAGGAACGCGCACTGGA
AACACCCCCACGCCTGTGGGGAAGAC	AGGGCAAGAATGAAAATGGATCGTGGCCGCTGGGA
AACACCCCCACGCCTGTGGGGAAGAC	GTGAGCTACGCCCACTTCGGCACGCTCACGCAGGA
AACACCCCCACGCCTGTGGGGAAGAC	TTGGCCCACTGCTCGAAATGCGCAACGATGCCGGA
AACACCCCCACGCCTGTGGGGAAGAC	CTTGCAGTCAACAACTCTTACAACTCTCATTGAGA
AACACCCCCACGCATGTGGGGAAGAC	TCCCCTCCAGCGCATCAAGCCACCCCGCTACCGGA
AACACCCCCACGCCTGTGGGGAAGAC	GGAGTAGACTGGTCACGTGTGACCTCAACAGTAGA
AACACCCCCACGCCTGTGGGGAAGAC	CTGCTACCAAGTTTTATGGTGAAGTAATATTTAGA
AACACCCCCACGCCTGTGGGGAAGACATGGGCTGAATACTTTGCACGTGCGGTCGGGCAGAAACACCCCCACGCCTGTGGGGAAGACGATGCTTCGGCGCTTGAGGAGACGACAGGAAAGGAAACACCCCCACGCCTGTGGGGAAGAC	TCCAGAAACCTCTCATACATCTCTGCCCTCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGTCTTACTCTGATGAGCTCGTCGAGGAGAA
GAAACACCCCCACGCCTGTGGGGAAGAC	CCGCAGCAGATCTGAGATGCGAGCTGTCGAGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGCGGATGATGTCATCTATAGGGGCCTGTGTCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATACAATCAAAACAGTCATGCTCCTCAAACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAAGCGTTCGCTCTAAGCCTGAACGAATACTT
GAAACACCCCCACGCCTGTGGGGAAGAC	CGTAAATCCTTAACCTCTCGTTGATGAGCGGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATCTATTACTTTGGCTGAACCGCGCCGGTCTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATTCCTTTATCTCTGGCGCAGACACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAATATCTGGCAAAGCGAGAGATGATTCTGCG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGCTTATCGCCTGCTGCGTCTTACTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	ATCTGGTACAGGGCTAACTCAGGAGGGCATGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCGGCAGTAGTCAAGCACAACCCGTACTGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTTTTATATGGAGCGAGACTCTGCTGCAGAAGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GCATTCTTTCCTGACCCCATCCAGCACAGCGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ACGCTAAAGGTAACGCTTTTATCGGAGGGTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGTGTCGGCGCATGGGAGCGTGAACTTGAAGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GCGTCCTGAGATCTTCAGCGTACAGCGCCTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AACCTTCTCCCCATCAGCGGTGTAAGCAATCGA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGTAGTAGTGACCAGGCTAACCAGATGTATG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCATCATTCACTCCTGTCAAATTTTAAAAAG


>NC_011059|2|2|1537000-1538308|PILER-CR
	TCCTTCCGGCGTGACGAAGGTGCAGGATGGGTGAG
AACCCCCCCACGCCTGTGGGGAAGAC	TGTGGATCTTGCTGATCTTGGTGCTTCGGGGTAGA
AACACCCCCACGCCTGTGGGGAAGAC	TCGACAAGCGCTACTATGAAGATGGGGGGCTTGGA
AACACCCCCACGCCTGTGGGGAAGAC	AATCGCACTGATGATGTGAATGGGTCTTTTGAGGA
AACACCCCCACGCCTGTGGGGAAGAC	AGAAAACCCGGCCACCTCAACGCGAATCAAGGAGA
AACACCCCCACGCCTGTGGGGAAGAC	GACGCGGCTTGCCTTGAGGTCTGGGCGAAGGCAGA
AACACCCCCACGCCTGTGGGGAAGAC	GGAAATAGAGACCGGCAGCAGGAACGCGCACTGGA
AACACCCCCACGCCTGTGGGGAAGAC	AGGGCAAGAATGAAAATGGATCGTGGCCGCTGGGA
AACACCCCCACGCCTGTGGGGAAGAC	GTGAGCTACGCCCACTTCGGCACGCTCACGCAGGA
AACACCCCCACGCCTGTGGGGAAGAC	TTGGCCCACTGCTCGAAATGCGCAACGATGCCGGA
AACACCCCCACGCCTGTGGGGAAGAC	CTTGCAGTCAACAACTCTTACAACTCTCATTGAGA
AACACCCCCACGCATGTGGGGAAGAC	TCCCCTCCAGCGCATCAAGCCACCCCGCTACCGGA
AACACCCCCACGCCTGTGGGGAAGAC	GGAGTAGACTGGTCACGTGTGACCTCAACAGTAGA
AACACCCCCACGCCTGTGGGGAAGAC	CTGCTACCAAGTTTTATGGTGAAGTAATATTTAGA
AACACCCCCACGCCTGTGGGGAAGACATGGGCTGAATACTTTGCACGTGCGGTCGGGCAGAAACACCCCCACGCCTGTGGGGAAGACGATGCTTCGGCGCTTGAGGAGACGACAGGAAAGGAAACACCCCCACGCCTGTGGGGAAGAC	TCCAGAAACCTCTCATACATCTCTGCCCTCTTG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGTCTTACTCTGATGAGCTCGTCGAGGAGAA
GAAACACCCCCACGCCTGTGGGGAAGAC	CCGCAGCAGATCTGAGATGCGAGCTGTCGAGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGCGGATGATGTCATCTATAGGGGCCTGTGTCG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATACAATCAAAACAGTCATGCTCCTCAAACTG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAAGCGTTCGCTCTAAGCCTGAACGAATACTT
GAAACACCCCCACGCCTGTGGGGAAGAC	CGTAAATCCTTAACCTCTCGTTGATGAGCGGTG
GAAACACCCCCACGCCTGTGGGGAAGAC	GATCTATTACTTTGGCTGAACCGCGCCGGTCTG
GAAACACCCCCACGCCTGTGGGGAAGAC	AATTCCTTTATCTCTGGCGCAGACACGATGCCG
GAAACACCCCCACGCCTGTGGGGAAGAC	CGAATATCTGGCAAAGCGAGAGATGATTCTGCG
GAAACACCCCCACGCCTGTGGGGAAGAC	TCTGCTTATCGCCTGCTGCGTCTTACTTTTGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	ATCTGGTACAGGGCTAACTCAGGAGGGCATGAG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCGGCAGTAGTCAAGCACAACCCGTACTGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTTTTATATGGAGCGAGACTCTGCTGCAGAAGG
GAAACACCCCCACGCCTGTGGGGAAGAC	GCATTCTTTCCTGACCCCATCCAGCACAGCGTA
GAAACACCCCCACGCCTGTGGGGAAGAC	ACGCTAAAGGTAACGCTTTTATCGGAGGGTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	GGTGTCGGCGCATGGGAGCGTGAACTTGAAGCA
GAAACACCCCCACGCCTGTGGGGAAGAC	GCGTCCTGAGATCTTCAGCGTACAGCGCCTCAG
GAAACACCCCCACGCCTGTGGGGAAGAC	AACCTTCTCCCCATCAGCGGTGTAAGCAATCGA
GAAACACCCCCACGCCTGTGGGGAAGAC	TTGGTAGTAGTGACCAGGCTAACCAGATGTATG
GAAACACCCCCACGCCTGTGGGGAAGAC	TTCCATCATTCACTCCTGTCAAATTTTAAAAAG
GAAACACCCCCACGCCTGTGGGGAAGAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_012505965.1\|1534920_1535799_-\|methyltransferase-domain-containing-protein	unknown	unknown	gnl\|CDD\|237007
NC_011059.1\|WP_012505971.1\|1541919_1542453_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NC_011059.1\|WP_012505961.1\|1530346_1530631_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012504678.1\|1533310_1534594_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|376564
NC_011059.1\|WP_012505960.1\|1529727_1530309_+\|pentapeptide-repeat-containing-protein	unknown	unknown	gnl\|CDD\|224276
NC_011059.1\|WP_012505968.1\|1539512_1540244_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09756_cas5_CAS-I-E	gnl\|CDD\|273842
NC_011059.1\|WP_012505957.1\|1524078_1527171_-\|efflux-RND-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|223911
NC_011059.1\|WP_012505963.1\|1532114_1533098_+\|ferrochelatase	unknown	unknown	gnl\|CDD\|366291
NC_011059.1\|WP_012505970.1\|1541296_1541923_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	pfam08798_cas6e_CAS-I-E:CAS-IV	gnl\|CDD\|273869
NC_011059.1\|WP_012505973.1\|1544036_1546619_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|182031
NC_011059.1\|WP_012505975.1\|1547171_1548146_-\|WYL-domain-containing-protein	WYL	pfam13280_WYL_CAS-I:CAS-III	gnl\|CDD\|379100
NC_011059.1\|WP_012505962.1\|1530717_1531914_-\|geranylgeranyl-reductase-family-protein	unknown	unknown	gnl\|CDD\|273936
NC_011059.1\|WP_012505959.1\|1529019_1529631_-\|CPBP-family-intramembrane-metalloprotease	unknown	unknown	gnl\|CDD\|376806
NC_011059.1\|WP_012505967.1\|1538647_1539523_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_011059.1\|WP_012505966.1\|1538339_1538645_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	cd09648_cas2_CAS-I-E	gnl\|CDD\|187779
NC_011059.1\|WP_012505958.1\|1527431_1528952_-\|TolC-family-protein	unknown	unknown	gnl\|CDD\|224455
NC_011059.1\|WP_012505972.1\|1542456_1544016_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	pfam09481_cas8e_CAS-I-E	gnl\|CDD\|187860
NC_011059.1\|WP_041702523.1\|1540240_1541278_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|187777
NC_011059.1\|WP_012505974.1\|1546639_1547182_-\|3'-5'-exonuclease	DEDDh	cd06127_DEDDh_CAS-I	gnl\|CDD\|176648
NC_011059.1\|WP_012505956.1\|1523233_1524076_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|131350

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_012505965.1\|1534920_1535799_-\|methyltransferase-domain-containing-protein	gnl\|CDD\|237007	PRK11873, arsM, arsenite methyltransferase.	1.6351e-23
NC_011059.1\|WP_012505962.1\|1530717_1531914_-\|geranylgeranyl-reductase-family-protein	gnl\|CDD\|273936	TIGR02032, Uncharacterized_protein_MJ1520, geranylgeranyl reductase family. This model represents a subfamily which includes geranylgeranyl reductases involved in chlorophyll and bacteriochlorophyll biosynthesis as well as other related enzymes which may also act on geranylgeranyl groups or related substrates. [Biosynthesis of cofactors, prosthetic groups, and carriers, Chlorophyll and bacteriochlorphyll].	3.41162e-80
NC_011059.1\|WP_012504678.1\|1533310_1534594_+\|IS110-family-transposase	gnl\|CDD\|376564	pfam01548, DEDD_Tnp_IS110, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family includes an amino-terminal region of the pilin gene inverting protein (PIVML) and of members of the IS111A/IS1328/IS1533 family of transposases. The C-terminus is represented by family pfam02371.	1.8328e-25
NC_011059.1\|WP_012505960.1\|1529727_1530309_+\|pentapeptide-repeat-containing-protein	gnl\|CDD\|224276	COG1357, COG1357, Pentapeptide repeats containing protein [Function unknown].	2.73301e-11
NC_011059.1\|WP_012505968.1\|1539512_1540244_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|273842	TIGR01868, hypothetical_protein, CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.	2.85723e-61
NC_011059.1\|WP_012505957.1\|1524078_1527171_-\|efflux-RND-transporter-permease-subunit	gnl\|CDD\|223911	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].	0
NC_011059.1\|WP_012505963.1\|1532114_1533098_+\|ferrochelatase	gnl\|CDD\|366291	pfam00762, Ferrochelatase, Ferrochelatase.	1.71519e-68
NC_011059.1\|WP_012505970.1\|1541296_1541923_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|273869	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family, represented by CT1974 from Chlorobium tepidum, is found in the Ecoli subtype of CRISPR/Cas regions and is designated Cse3 (CRISPR/Cas Subtype Ecoli protein 3). The representative of this family from Thermus thermophilus HB8 (TTHB192) has been crystallized and found to have a structure consisting of two domains with opposing parallel beta-sheets known as a beta-sheet platform. This structure is similar to those found in the Sex-lethal protein and poly(A)-binding protein. This structure is consistent with an RNA-binding function.	1.35216e-50
NC_011059.1\|WP_012505973.1\|1544036_1546619_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	1.93232e-86
NC_011059.1\|WP_012505975.1\|1547171_1548146_-\|WYL-domain-containing-protein	gnl\|CDD\|379100	pfam13280, WYL, WYL domain. WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.	4.37382e-49
NC_011059.1\|WP_012505971.1\|1541919_1542453_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	6.31875e-36
NC_011059.1\|WP_012505959.1\|1529019_1529631_-\|CPBP-family-intramembrane-metalloprotease	gnl\|CDD\|376806	pfam02517, Abi, CAAX protease self-immunity. Members of this family are probably proteases (after a isoprenyl group is attached to the Cys residue in the C-terminal CAAX motif of a protein to attach it to the membrane, the AAX tripeptide being removed by one of the CAAX prenyl proteases). The family contains the CAAX prenyl protease. The proteins contain a highly conserved Glu-Glu motif at the amino end of the alignment. The alignment also contains two histidine residues that may be involved in zinc binding. While they are involved in membrane anchoring of proteins in eukaryotes, little is known about their function in prokaryotes. In some known bacteriocin loci, Abi genes have been found downstream of bacteriocin structural genes where they are probably involved in self-immunity. Investigation of the bacteriocin-like loci in the Gram positive bacteria locus from Lactobacillus sakei 23K confirmed that the bacteriocin-like genes (sak23Kalphabeta) exhibited antimicrobial activity when expressed in a heterologous host and that the associated Abi gene (sak23Ki) conferred immunity against the cognate bacteriocin. Interestingly, the immunity genes from three similar systems conferred a high degree of cross-immunity against each other's bacteriocins, suggesting the recognition of a common receptor. Site-directed mutagenesis demonstrated that the conserved motifs constituting the putative proteolytic active site of the Abi proteins are essential for the immunity function of Sak23Ki - thus a new concept in self-immunity.	7.1365e-06
NC_011059.1\|WP_012505967.1\|1538647_1539523_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274693	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.	5.02642e-132
NC_011059.1\|WP_012505966.1\|1538339_1538645_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|187779	cd09648, Cas2_I-E, 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.	6.84828e-38
NC_011059.1\|WP_012505958.1\|1527431_1528952_-\|TolC-family-protein	gnl\|CDD\|224455	COG1538, TolC, Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion].	2.32674e-12
NC_011059.1\|WP_012505972.1\|1542456_1544016_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|187860	cd09729, Cse1_I-E, CRISPR/Cas system-associated protein Cse1. 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; subunit of the Cascade complex; signature gene for I-E subtype; also known as Cse1/CasA/YgcL family.	7.32401e-92
NC_011059.1\|WP_041702523.1\|1540240_1541278_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|187777	cd09646, Cas7_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas7. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cse4/CasC family.	1.05973e-115
NC_011059.1\|WP_012505974.1\|1546639_1547182_-\|3'-5'-exonuclease	gnl\|CDD\|176648	cd06127, DEDDh, DEDDh 3'-5' exonuclease domain family. DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.	1.01131e-51
NC_011059.1\|WP_012505956.1\|1523233_1524076_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|131350	TIGR02297, AraC-type_DNA-binding_domain-containing_protein, 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.	1.43084e-20

>NC_011059.1|WP_012505965.1|1534920_1535799_-|methyltransferase-domain-containing-protein
MSDNTIGGFFEYLNWLFNPFHGLKTTEVYDLIGTTSLTENALYLNLGYWRDVDTIDEASEALALLVAKRGGMGAGDTVLDCGYGFGDQDILWTRIMNPEKIIGLNITRSQVERARMNVAEAGLENAIDLREGSATEMPIDNESIDLVVSVESAFHYRTRDDFFREAFRVLRPGGRLVTADILPMEDSENLFRRLEQWISWNMVAGKFNIPEENYYLIPSYRDKLSIAGFVDIDITSIRDDVYTPLHEYLSGDRTFVGKLPPLPKMLAQSAFNRSADSVYAGLDYILSYAEKP
>NC_011059.1|WP_012504678.1|1533310_1534594_+|IS110-family-transposase
MQTETERLAAYRQLRTGIRGSEKHLIAGIDIAKDKHYAFFGTATGKTLCKQFTFPNSNEGFELLCSKAETLRLQHQLQQVVIGVEPTANYHKPLADHLVRHGLLVVQVSGVAVKKNRELLDGRWDKHDRKDAANIADLIAQGKCQFYDYPSPAIRELRELLHLKHTLKQEEHRIKTRIRNNLLAQFFPEMDQFMTTCQQDTLAVIGTCCSPEQIATLDYESFFAKVVTVYKGKRQEEHLLRIWQCARASIGCLAGNAPIYEGKVLIDQLLHLRQIIKELDEQIATLCSGFEEYPCLLSIPGIGPAISATILAAIGNPYRFDTTKQVIKLAGLDLSASRSGRSAVNATPIISKRGQAELRYALCQAALVAGSRNTFFRCWFAKKLQGRERERGIVGILRVKLAAKLLVIAWTMMKKKEMFAYERLNNC
>NC_011059.1|WP_012505963.1|1532114_1533098_+|ferrochelatase
MKQRIAVILAAHGEAETAGFFDNFSMNRHTLAHAGEVMNLPAALQLMIAVAGGAKNMVQFRKKNFRSPQNEITRKQAGLLAEKLARQAEEIEFEVHASFFVTPPFVGKVIEQTRQCDLQLLIPMAPIDNRLMSGSLDILAQRQQSSQSQMRPKVISGFWNDPDLLNISLDHLFMHAAPSDNTALVLAFHGTLEKNQKGEEPGFHTGSKEMGSMASALQKAVRNDPRNSYKRIEVAYLNHDVGGTWSSPSLQEMLESLHKKSVDALELFCCGYFSDGTETMLHAREHVAESSIKKSDFIPCLNESEAFAEYLAAKIRKAIDQTASPAV
>NC_011059.1|WP_012505962.1|1530717_1531914_-|geranylgeranyl-reductase-family-protein
MQCYDAVISGAGPAGCSAALFLAAKGHRVLLLDKARFPRDKTCGDGVTAASSSLLEEIGVMEVVKQRLGDRPEIQGVTLSSPSGTVVRGRLLKVKRFSGGDYVIPREMLDDCLVSCVREHPDVTFLDNAAVTSITMDGQRARSLSTSRGDFSGRVIIGADGSYSPLASQLHLNNTSKEHQGFAIRAYFSKVEGLTDTIEIHYDRSIGSGYGWIFPLGDKRANVGVGITSRNMERRRLKRMFEQFIETNPFAVAKLRHARMESGTLKAYPLPLGSFRGKRSRGNVLLAGDAASFVDPLTGEGIFYALQSGRYAAEAASRAIGEDETRASAYYEKLWRKEFLFHDFRVGYLLQSLLQHEFIMESLLKFASGKQRRADLLAAVIGHNRRKIELLKMLIPFF
>NC_011059.1|WP_012505961.1|1530346_1530631_-|hypothetical-protein
MEAQSNDEAMRDLYRPIVTAMVDRWSEGKPLNPDSGKANGYYRLTAWLLDYLVLHRSMPQGLHQMPEGRDRFNRIERSFPVDFDELSRGLSLPA
>NC_011059.1|WP_012505960.1|1529727_1530309_+|pentapeptide-repeat-containing-protein
MKNDNNEFTENRVFKTVSFGEDNPLHGTYEECRFIHCNLNTTDLSDITFRNCSFESCDLSLARLRDTGFQDVHFLNCKLLGLNFSECRKLLLECRFESCMLKLSVFHQLDLRTTSFNDCNLQETDFTAADLSAAVFANCDLMRATFERTNLEKADFRSAFNYIINPENNRIRKARFRMPGVTGLLDIYDIEIE
>NC_011059.1|WP_012505959.1|1529019_1529631_-|CPBP-family-intramembrane-metalloprotease
MEKRFFFRFLPVVFLLFFLPASLVAAGYIPFWFRIPLLLFSFCLTVLYSYYRGFTLRDLGIRRDNLAASLRVNSVVTLCFSVLMGLLFYFELIPGPYFPAMGIFLPFYLLVSSPMQEFLFRGFLFAEMRASGVRSGFLLVVFSALLFSFIHIVYGDWLTLVLTFLIGLVWGGIYYRIPNIAGLSVFHAIAGMLALLAGAARNM
>NC_011059.1|WP_012505958.1|1527431_1528952_-|TolC-family-protein
MRSENIHMFIFFIVISHSGRLLRDLVFFLLTVACLVSIQPEAVVAEPLTQEAFVALLEKRHPVFEKERLSSAIEEATQQGYLGDTDWNLSSSLTWSREEATITAFSPDLSTSLGLQTGLSKQFWETGGRLSAIYAINRSSSSFEEIPLFSYPDTFYENSVELQYAQPLLRNRGGKLSRLQYDLKGYDVDVSGIQAVENIEEFLAASISKYLDWVYLEEQKKIMSRRLDLSRREFERTQSKFNAYLVDSADVMRSKDALNTWRQNLGLVELQLTALKEELSVLVQSDVVLRAEPDFNLYTEHRFESLASARTKLERGSRLLKILELRKQQLDVNAIGVRETGKPDLSLIAAVTFKSAEGSAGESFDFDKKDAALGLQLSVPLENTTAKAEYQRTRLQTLQLGKERQDVMLSLNASLSSLHTQLRKLSEVLELNREQIESARLRTIEETKIYEQGRGDLTFVIMSRDNEESAKLTYAENALNYQKLWVQYQALMDELYGEGIVLGSEF
>NC_011059.1|WP_012505957.1|1524078_1527171_-|efflux-RND-transporter-permease-subunit
MKALFRYFAERHLLAYILTILVFLFGAATLWQINRAQYPKVDLGQMVVTTQYPGASPEDVEQNVTNKIEDELKSVTDIRRVFSMSMENVSIVIVDIEPDASDPRGVKREIREAVFRITDFPAEVTESSLITDIKSSIFPILEVGLTGDMPYPELREFARRFEKKLKDIPGVASVQRYGYRDREIQVELFPDKIRELQIPMQGVVDAIQQRNIRATGGSLESFTSEKNVVTLAQFRNPEEVGEVVVRSSFDGPIIRVSDIAEVTDGFEEERVLSRINGHPAISFLINKSESADIIRTVQSIRKLVDEEGQQLPEGIRFIYGLDFSQYVENQLSIVVTNGAIGLVLVLIALTFFLNLRTAFWVALGIPFTLLGGISLLPLFDVELDSVTLTSLIIVIGIVVDDAIIISENIFQRREQGDSPVDAVVNGVFKVYKPVLTTVVTTFLAFAPMFFMPGILGKFVFVIPLTISLALFVSIFEAFLILPAHILPGLYTRDSGNQKTTMRNWFVPLRNGFEKLLLFLLRLRYLLIFLGFLSLGGALYYGLNYMSYILFPTKGADAFNIWVELPVGSSLNATSAKAAEFEKLLEVLPEEEVSAYLTRIGTQADIVPMEKENFVELSVKLTPYGTRDRSADEIVADIRQKAMEIDGVQKTTFFVESGGPPVGKPVTIRVVGSDDELRTGLGDAVFSYLSGIEGVTDPDRDDKEGKEQIEITIRHDRLSRLGLSVSDIARTVRTAYDGQVVTSVRYGEEEVDFRVMLQKYTRRNIEYLEELSIPNRTGRLIPLKEVAGFEQGAGPSIFYHYDGERSITLSADVAQEKITPIEVMQQVERQFAVNRDFPGIKLVFGGEAQESQESLKGLFVAFGIAAVGIYFLLVLLFNSLTQPLLVMMSIPFAIIGVVIAFALHGEVFSFLGLLGVVGMAGVVVNDSLVLVNYLNELYQSGKSTDIPQLVAKGTADRLRAILLTTITTAAGLLPLAYGIGGTDASMMPMALALGWGLLLATPLTLVLIPCLYMIGFDIRSLWKNIRKPQAS
>NC_011059.1|WP_012505956.1|1523233_1524076_-|helix-turn-helix-domain-containing-protein
MIIPDTPFNPASADFFGIYPLTRSLPELQDLSVRFTLFHIVWFTGESSSQYVIDFERYPIAADSLYCLGPWQVHRVSGEPAEGIRIIFSGDIYGDVVNDDVRWLFNPLVNDGVRLKADIVEPLRMLLRLMVRESSGAGETDMLKAYLKAFLLHLIRSGSGERISFGVDAARLMILFSLVDTHYRKERKVSFYASRIGLSPKRLNEILKMATGLTLTALLHYRLIIEARRQISYGKRNFKEIAFDLGFSEQAYFSRFFKKKTGQTPEAFRQQMFKLSKQSG
>NC_011059.1|WP_012505966.1|1538339_1538645_-|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MVIVVANDIPPAVRGRMKLWFVEPRANVFVSGIKDSVAKKVIDYLHKHCPSESGLMVFKSCNEAPGYEIFGHGDTRKQLIELSGMQLVIEKYSEPNRESKT
>NC_011059.1|WP_012505967.1|1538647_1539523_-|type-I-E-CRISPR-associated-endonuclease-Cas1
MKTEKIVPESKPSRLLIKITRDTLPQVKDKYPFLYLERGRLEIDDSSIKWIDCDCNVVRLPVAQLNCLLLGPGTAVTHEAVKVMAAANCGICWVGEDSLIFYAAGQTPTSDSRNFRRQMVLSADPEKSLKVAQRMFARRFPDAKLETKSLQQMMGMEGLRVRQLYVQKAQEYKVGWKGRQFTPGKFEIGDITNRILTSSNAALYGIICSAVHSMGYSPHMGFIHTGSPLPFVYDLADLYKENLSIDLAFRLTALMAGTYDRHKIATEFRRRVIEMDLLARIGPDIEEMLGR
>NC_011059.1|WP_012505968.1|1539512_1540244_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MSNVYLLLWLEAPLQSWGADSRFGRRGTLEFPTKSGVLGMLCCSLGAGGEQKELLEKMAPLKQSAISFCRTSKFRQEEIKKLDREPLLRDFHMVGSGYDDKNPWETLLIPKKSDGTTAVNGGSKITYRYYLQDAVFAVIMEVPSEKLTLFADALENPCWDIYFGRKCCAPTDFIYRGCFNTESLAIGKALEIAQEKRLMEDFRVVDGEHEGEAIVLNDVPIQFGEQKLYRERRVTVISCANEN
>NC_011059.1|WP_041702523.1|1540240_1541278_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTNPFRNTRIEYHILQSFPVTCLNRDDVGAPKTAIVGGSTRARVSSQCWKRQVRLSMQDFGIKLGIRSKKVSEFVAKACLQKGASEEQAAECGKVISDSFSKDTLFFFSESEAQAFADYAREKNFDSKNLNDKEIRKVAKKALNPAIDGLDIALFGRMVAQATDLNIEAAASFSHAISTHKVSNEVEFFTALDDLAEEPGSAHMGSLEFNSATYYRYISLDLGQLWESIGGEHLAEAVESLTKALFVAVPSARQTTQSGASPWEFAKIFIRKGQRLQVPFETAVKAKDGGYLQPSITALTDYLTKKEALAGSLFGKEKEFTFGEDVNFSIDDLIKGLKLTVAEVQ
>NC_011059.1|WP_012505970.1|1541296_1541923_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MIASILRLGPKEIKALRITDDYSLHRVVYSLFEDRRSEAEKNASIPSGFLYADKGGDSNGRLILMLSDREPRKPEHGILESKQVDDTFLMFDRYRFDVVINPSKRESKSRKIVAIRERNEIAQWFSEKAPASWGFTVNSATLEVKTLPVKQFVKKEHRVTQGGAELTGELDVVDRTLFIKSFKQGIGRGRAFGFGLLQIAPLKVSFTN
>NC_011059.1|WP_012505971.1|1541919_1542453_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MNNEPETKISRSQAFVQFIIALIKQNKGAAAVLRRADNPATEYQSWEYLAAFNIDLEKPWERLPFAIVAAAIAKGKIESNGSIGIGNAIARSYEDGNQSDQAKAKLRRLLACGSVEEVCRILRPLFSLFESRGVTLINYAGLLEQLLKFHWDCQRIKTQWAQEFYRQNQKIETKEAV
>NC_011059.1|WP_012505972.1|1542456_1544016_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MIPENCFNLIDEPWIPVIDKGRISLRQVFSEPDNRALGGNPLQKLALTKLLLAIGQAACTPENDEIHASMESSELAQKCLEYLDIWHDRFWLYGKKPFLQIPTINGLIERRKRKDLHAATSQAGKRNAEARAQPKSIGMGFYPDVPAENNTILTQYQVPKILADADKALFLVSLMNFALGGKRTEKNLDTLTDGYVGKTVSAKAAPSIGNYNGYLHSILVGKTIIDTLLLNLLSKERIKENAYWTTGLGIAPWEEMPKGEACPTAMKLKSSYMATLISLSRFVLLKGDGIYYVEGLQYPSHKDGWREPSMAVNAGGATPKIKWIDPNKRPWRELASLLAFMSAGGRQGYDCQFIRYGLVRFRSRYKQVGVWSGGLKVTTNAGDQSVKQDDDFVESLIFLDCAILGEPWYHQLQVEMDALDQLSKTVWAAINDFFKTQNMAGSSLAGQATTMFWELCERRFQDLVDACAPPYDTLRVRKVFAQSAIKAYDAFCPKESARQIDAWAKNRPNLINYLNSENK
>NC_011059.1|WP_012505973.1|1544036_1546619_-|CRISPR-associated-helicase/endonuclease-Cas3
MRLPRAKQNDEAARQPNKSLPIEACLAKTRVSENKKSVSGRNVLDHCSIVGEVARELLSRMPVFLRSALFPDGTELVAAIHDIGKVSPSFQEKIYRGTDGYIWNTLDGLSFSNPEHEKNWGGHAGVSMAAARARRIGKYIPEIIGQHHGYSPELNGLVAEDEVFGGNAWQKMREELLCILKDSLKKEFPAIENALQAKAIAGLTTVADWIGSGSFFDDPDEQWLPLIKHAVDSAGFVQPEIIKGLGFSEIFSFRPREIQQLLIEQATQPGVYILEAPMGIGKTEAALYAAYSIIAAGGATGLYFALPTQLTSNRIHDRVNDFLKKILAPDCIHRQALLLHSNAWLKEIEMGADGGPGGNWFNSGKRGILAPFAVGTIDQALMAVMNVKHGFVRTFGLAGKVVILDEVHSYDAYTGTILDKLVEALRKLQCTVIILSATLTKERRMNILQQPVHDISYPLITASQNHGESVIETTAVVPGKTVVSIQSSSYFDLAIEEALTRAEGGQQVLWIENTVAEAQNSFSILAARSAGMEIECGLLHSRFIKADRERNEEYWVTRYGKGCDELRRQSGRILVGTQVLEQSLDIDADFLVTKICPTDMLLQRIGRLWRHGDTFRPVGAVCEVLILKPEFHSALLNPEKEFGPTANVYSPYVLLRTLVVWNDLADIVLPEQIRSLIEATYMEIEEHPMMLKYKAKLQQEKAKLELLALGGVSEGTKTLPESKASTRYSEQESVEVLLLRSFLFDRNQNVTNVKLLDGSDLFLPLVCSKKSKKEQRSLAASLAQYTLHVADYLAPEVISVKNLDWLKNYFYLGDRDHDESLLRVAIVGQDEELRSLSGQNASSSYRISYSSRQGYRAIKI
>NC_011059.1|WP_012505974.1|1546639_1547182_-|3'-5'-exonuclease
MKSNVSLLRSGRVIAVDVETTGLSPRRGDRVIEVAAVAIVNGVIEEHFCCLINVNAPIPTVVQKIHGITPELLAGEKPPEAVWPEFLKFIGSNILIAHNAPFDISFIRNELRFLGLSLLNGSQCTLAFSRKKFPQLKNHKLENVARHVLGGMPKGIKLHRASGDALLTAMIWQVIENTQL
>NC_011059.1|WP_012505975.1|1547171_1548146_-|WYL-domain-containing-protein
MKQSRPPVVRMYFLDDQLRKNLFPNCSSVAAYFEVSPKTIQRDVDYMRDLLGAPIEYHRKKRGFFYRENWVFLPSAFLEQDEAEALKVTKKVLSHYTGTPYYDEVSSALDKVLQYLPKTFGDSDLFSVYSFEHSAVTHELSTHFVTLEDAIRQKMKISIVYDAPSSGAMSERTIHPYRLHYSHAAQRWYLVAYCELRMGMRTFAIGRIKKLQLLTEHFECRPGFSVDAYLSKTFDQMVGETEQEVSIRFSAYQAPWIKERQWHPSQKISEHHEGGITISFNVGALDAVKRWVMRYGKEAEVIEPQELRDMVRDEVRDMGVVYEE

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Crispr_ID: NC_011059_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_3

1896314-1896402

Orphan

Consensus_repeat	Method
GTCTCTTGTCACTCGTCACGCGTCAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011059_3

>merge|NC_011059|3|1896314-1896402|CRISPRCasFinder
GTCTCCTGTCTCTTGTCACTCGTCACGCGTCACGCGTCACCAGTCACCGCGCGAAGCGCTCCCGCCTCTCGTCTCTTGTCACTCGTCAC

>NC_011059|3|3|1896314-1896402|CRISPRCasFinder
GTCTCCTGTCTCTTGTCACTCGTCAC	GCGTCACGCGTCACCAGTCACCGCGCGAAGCGCTCCC
GCCTCTCGTCTCTTGTCACTCGTCAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_012506290.1\|1900312_1902199_-\|glutamine--fructose-6-phosphate-transaminase-(isomerizing)	unknown	unknown	gnl\|CDD\|234729
NC_011059.1\|WP_012506280.1\|1889538_1890054_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|366181
NC_011059.1\|WP_012506283.1\|1891005_1891758_-\|YdcF-family-protein	unknown	unknown	gnl\|CDD\|99750
NC_011059.1\|WP_012506285.1\|1894140_1895124_+\|transcriptional-regulator	unknown	unknown	unknown
NC_011059.1\|WP_012506276.1\|1883927_1884473_-\|dTDP-4-dehydrorhamnose-3,5-epimerase	unknown	unknown	gnl\|CDD\|376414
NC_011059.1\|WP_012506284.1\|1892272_1893682_-\|phosphomannomutase	unknown	unknown	gnl\|CDD\|100090
NC_011059.1\|WP_012506277.1\|1884976_1885852_-\|glucose-1-phosphate-thymidylyltransferase-RfbA	unknown	unknown	gnl\|CDD\|130274
NC_011059.1\|WP_012506289.1\|1899034_1899427_-\|type-II-toxin-antitoxin-system-VapC-family-toxin	unknown	unknown	gnl\|CDD\|350221
NC_011059.1\|WP_012506297.1\|1906391_1906982_-\|adenylyl-sulfate-kinase	unknown	unknown	gnl\|CDD\|223603
NC_011059.1\|WP_012506295.1\|1904749_1905463_-\|NTP-transferase-domain-containing-protein	unknown	unknown	gnl\|CDD\|133065
NC_011059.1\|WP_012506291.1\|1902206_1902641_-\|universal-stress-protein	unknown	unknown	gnl\|CDD\|366180
NC_011059.1\|WP_012506278.1\|1886033_1887455_-\|mannose-1-phosphate-guanylyltransferase/mannose-6-phosphate-isomerase	unknown	unknown	gnl\|CDD\|273648
NC_011059.1\|WP_012506279.1\|1888322_1888805_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506281.1\|1890050_1890332_-\|DUF1778-domain-containing-protein	unknown	unknown	gnl\|CDD\|370057
NC_011059.1\|WP_012506287.1\|1896592_1898101_+\|Fic-family-protein	unknown	unknown	gnl\|CDD\|376885
NC_011059.1\|WP_012506286.1\|1895117_1895882_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506296.1\|1905459_1906059_-\|SIS-domain-containing-protein	unknown	unknown	gnl\|CDD\|184408
NC_011059.1\|WP_012506293.1\|1903144_1904176_-\|dehydrogenase	unknown	unknown	gnl\|CDD\|225325
NC_011059.1\|WP_012506288.1\|1898804_1899038_-\|type-II-toxin-antitoxin-system-prevent-host-death-family-antitoxin	unknown	unknown	unknown
NC_011059.1\|WP_012506294.1\|1904202_1904766_-\|D-glycero-beta-D-manno-heptose-1,7-bisphosphate-7-phosphatase	unknown	unknown	gnl\|CDD\|319806

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_012506280.1\|1889538_1890054_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	0.00027027
NC_011059.1\|WP_012506283.1\|1891005_1891758_-\|YdcF-family-protein	gnl\|CDD\|99750	cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.	3.525e-29
NC_011059.1\|WP_012506290.1\|1900312_1902199_-\|glutamine--fructose-6-phosphate-transaminase-(isomerizing)	gnl\|CDD\|234729	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase.	0
NC_011059.1\|WP_012506276.1\|1883927_1884473_-\|dTDP-4-dehydrorhamnose-3,5-epimerase	gnl\|CDD\|376414	pfam00908, dTDP_sugar_isom, dTDP-4-dehydrorhamnose 3,5-epimerase. This family catalyze the isomerisation of dTDP-4-dehydro-6-deoxy -D-glucose with dTDP-4-dehydro-6-deoxy-L-mannose. The EC number of this enzyme is 5.1.3.13.	1.69076e-106
NC_011059.1\|WP_012506284.1\|1892272_1893682_-\|phosphomannomutase	gnl\|CDD\|100090	cd03088, ManB, ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In Mycobacterium tuberculosis, the causative agent of tuberculosis, PMM is involved in the biosynthesis of mannosylated lipoglycans that participate in the association of mycobacteria with host macrophage phagocytic receptors. ManB belongs to the the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.	0
NC_011059.1\|WP_012506277.1\|1884976_1885852_-\|glucose-1-phosphate-thymidylyltransferase-RfbA	gnl\|CDD\|130274	TIGR01207, Glucose-1-phosphate_thymidylyltransferase_1, glucose-1-phosphate thymidylyltransferase, short form. Alternate name: dTDP-D-glucose synthase homotetramer This model describes a tightly conserved but broadly distributed subfamily (here designated as short form) of known and putative bacterial glucose-1-phosphate thymidylyltransferases. It is well characterized in several species as the first of four enzymes involved in the biosynthesis of dTDP-L-rhamnose, a cell wall constituent and a feedback inhibitor of the enzyme. [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides].	0
NC_011059.1\|WP_012506289.1\|1899034_1899427_-\|type-II-toxin-antitoxin-system-VapC-family-toxin	gnl\|CDD\|350221	cd09873, PIN_Pae0151-like, VapC-like PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs. Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of the Pyrobaculum aerophilum proteins, Pae0151 and Pae2754, and homologs are included in this subfamily. They are similar to the PIN domains of the Mycobacterium tuberculosis VapC and Neisseria gonorrhoeae FitB toxins of the prokaryotic toxin/antitoxin operons, VapBC and FitAB, respectively, which are believed to be involved in growth inhibition by regulating translation. These toxins are nearly always co-expressed with an antitoxin, a cognate protein inhibitor, forming an inert protein complex. Disassociation of the protein complex activates the ribonuclease activity of the toxin by an, as yet undefined mechanism. The PIN domain belongs to a large nuclease superfamily. 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.	6.61952e-26
NC_011059.1\|WP_012506297.1\|1906391_1906982_-\|adenylyl-sulfate-kinase	gnl\|CDD\|223603	COG0529, CysC, Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism].	5.5315e-94
NC_011059.1\|WP_012506295.1\|1904749_1905463_-\|NTP-transferase-domain-containing-protein	gnl\|CDD\|133065	cd06915, NTP_transferase_WcbM_like, WcbM_like is a subfamily of nucleotidyl transferases. WcbM protein of Burkholderia mallei is involved in the biosynthesis, export or translocation of capsule. It is a subfamily of nucleotidyl transferases that transfer nucleotides onto phosphosugars.	6.56356e-106
NC_011059.1\|WP_012506291.1\|1902206_1902641_-\|universal-stress-protein	gnl\|CDD\|366180	pfam00582, Usp, Universal stress protein family. The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, though UspA lacks ATP-binding activity.	2.35226e-27
NC_011059.1\|WP_012506278.1\|1886033_1887455_-\|mannose-1-phosphate-guanylyltransferase/mannose-6-phosphate-isomerase	gnl\|CDD\|273648	TIGR01479, Mannose-1-phosphate_guanylyltransferase, mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal. [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides].	0
NC_011059.1\|WP_012506281.1\|1890050_1890332_-\|DUF1778-domain-containing-protein	gnl\|CDD\|370057	pfam08681, DUF1778, Protein of unknown function (DUF1778). This is a family of uncharacterized proteins. The structure of one of the hypothetical proteins in this family has been solved and it forms a helix structure which may form interactions with DNA.	1.19019e-16
NC_011059.1\|WP_012506287.1\|1896592_1898101_+\|Fic-family-protein	gnl\|CDD\|376885	pfam02661, Fic, Fic/DOC family. This family consists of the Fic (filamentation induced by cAMP) protein and doc (death on curing). The Fic protein is involved in cell division and is suggested to be involved in the synthesis of PAB or folate, indicating that the Fic protein and cAMP are involved in a regulatory mechanism of cell division via folate metabolism. This family contains a central conserved motif HPFXXGNG in most members. The exact molecular function of these proteins is uncertain. P1 lysogens of Escherichia coli carry the prophage as a stable low copy number plasmid. The frequency with which viable cells cured of prophage are produced is about 10(-5) per cell per generation. A significant part of this remarkable stability can be attributed to a plasmid-encoded mechanism that causes death of cells that have lost P1. In other words, the lysogenic cells appear to be addicted to the presence of the prophage. The plasmid withdrawal response depends on a gene named doc (death on curing) that is represented by this family. Doc induces a reversible growth arrest of E. coli cells by targetting the protein synthesis machinery. Doc hosts the C-terminal domain of its antitoxin partner Phd (prevents host death) through fold complementation, a domain that is intrinsically disordered in solution but that folds into an alpha-helix on binding to Doc.This domain forms complexes with Phd antitoxins containing pfam02604.	2.32318e-12
NC_011059.1\|WP_012506296.1\|1905459_1906059_-\|SIS-domain-containing-protein	gnl\|CDD\|184408	PRK13937, PRK13937, phosphoheptose isomerase; Provisional.	8.62909e-84
NC_011059.1\|WP_012506293.1\|1903144_1904176_-\|dehydrogenase	gnl\|CDD\|225325	COG2605, COG2605, Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only].	5.13609e-126
NC_011059.1\|WP_012506294.1\|1904202_1904766_-\|D-glycero-beta-D-manno-heptose-1,7-bisphosphate-7-phosphatase	gnl\|CDD\|319806	cd07503, HAD_HisB-N, histidinol phosphate phosphatase and related phosphatases. This family includes the N-terminal domain of the Escherichia coli bifunctional enzyme histidinol-phosphate phosphatase/imidazole-glycerol-phosphate dehydratase, HisB. The N-terminal histidinol-phosphate phosphatase domain catalyzes the dephosphorylation of histidinol phosphate, the eight step of L-histidine biosynthesis. This family also includes Escherichia coli GmhB phosphatase which is highly specific for D-glycero-D-manno-heptose-1,7-bisphosphate, it removes the C(7)phosphate and not the C(1)phosphate, and this is the third essential step of lipopolysaccharide heptose biosynthesis. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	2.15479e-71

>NC_011059.1|WP_012506286.1|1895117_1895882_+|hypothetical-protein
MVGLKKFSSHFSSYKDHYVLIGGAASWLVLDAAGLEPRATKDLDIVLCIEVLDAQFGKVLWNFIQEGGYEIQEKSNGEKSFYRFSKPTQKDYPVMLELFSRKPDSLILGNDSQLTPIPIEEDVSSLSAILLENDYYDVIHQYKKEIEGVSIVGEECLIPLKARAWLDLTKRKANGGRVDSKNIRKHRNDILRLYQLLTPGRDIDMPESVKKDLKDCLLAVEPELTPHLLNDLNISEGSVATITSTIKTVYGIAD
>NC_011059.1|WP_012506285.1|1894140_1895124_+|transcriptional-regulator
MEATKQQFEDFVKKIAGYPVTWGNLITTPLPQLLKQRYALYTLHIGNRSFLGIYLKNKIEFKPATFEKHLQQVWQNITEYDAYCVITQDLPGYVRQRMVERKIPFVDIGRQLFWPELGAAYQQKKLKASPPVVKALSPATQAVLIYALNDGIQKPVTPKKLAEQLGYTPMTMTRALNEIESIKLCSVKRQGKERFLLPEHKEMLWKNARPFLHNPVKNVKRIMEKDLPENQRLAAGETALAQCSMLTLPKEPIYALWNRYWKKLSKTAQTVPIEDEGTCQLQLWHYNPALFAAEGRVDPFSLYLSLQTERDERVESALEKIMEKLKW
>NC_011059.1|WP_012506284.1|1892272_1893682_-|phosphomannomutase
MNFLLGSGVGFGTSGARGLVVDMTDRVCYGFAAAFLGSVAGDAAGVVIGHDLRPSSPGIAGACARAVMDSGRELVYAGALPTPALAFYAQRLGLPAIVVTGSHIPFDRNGIKFYRADGEISKADELAMMEAEVVVPEVVVPAVLPALDGRAREAYVRRYLDFFGAGSLEGMRVGVYEHSSVARDVLREILEGLGADVVSLGRTEVFVPIDTEAVRPEDVLQARAWADEVGFDAIVSTDGDGDRPLIGDENGLWMRGDVVGILCAQFLRANVVVTPVSCNTAVEACGWFGKVVRTRIGSPYVVAGMDASAADGVVVCYEANGGFLLESRVVHNGRTLEALPTRDSVLPILALLGMARERDEKVSGLSASLPKRFTASDRLKDVPTERSNSLISSLRDSPDEAARLLGPDAGGVAWMDMTDGLRMTFENGDIIHLRPSGNAPELRCYAEADSVERAEMLCAGALGAVTRDA
>NC_011059.1|WP_012506283.1|1891005_1891758_-|YdcF-family-protein
MLIFHKVLPVFVLPLGLGIVVVVLGALFRRWWLVWSGVGLLWVLGMPVTGDWMMRMVEGVDRRVDVALLEPADAVVVLGGVTVQVPGVRYGEWGDAADRFEGGVEVFRGGKAPLLVLTGAKMPWAPDARVEGELLRERALLLGVPEESVRVTGRVGNTADEAREVRKLLAGIARPRVILVTSAFHMRRAAMLFRHAGLRVDEFPVDFRTSFYDRLTVIDFLPCADGLENSELAIREMIGWLYYLLVNGEW
>NC_011059.1|WP_012506281.1|1890050_1890332_-|DUF1778-domain-containing-protein
MATQATIKTERIDVRANLSVKQLLQEAARACHKSVSEFLLDAGVHAANQALAERRGFELDDARWQEFQELLDRPVSAPHGRMKSLLSEPGVLD
>NC_011059.1|WP_012506280.1|1889538_1890054_-|GNAT-family-N-acetyltransferase
MSGSGFNQVQKLASSHDVSIFDCGNKALNQFLQRYAFVNQKANSAQTYVCCEQGTHCVAGFYSLTVGSVEPSAAVGRLSKGLARHPVPVMILARLAVDCRHQGVGLGRALLKDALLRTAQAAELAGIRAILVHAKDDDARNWYLQWGFEQSPTDPYHLFLLIKDLLAFLKR
>NC_011059.1|WP_012506279.1|1888322_1888805_+|hypothetical-protein
MAEEKNQHRLNFALVSIKTDQLNIHPEAFTGETNAKINSGINFGVDSKRKLLKVIFKNIFFNAESDKPTPEETGNPFIDITVSCVFAIDPESWKMLANEEKNMFVIPKDLAGHFASITQSTARGILHNETENTDYNKYMIPANNIGDVINEHVRLPLEKK
>NC_011059.1|WP_012506278.1|1886033_1887455_-|mannose-1-phosphate-guanylyltransferase/mannose-6-phosphate-isomerase
MIIPVILSGGSGTRLWPLSRAMYPKQLLPLAGKGTMLQETVSRLAAMIDIGPVFCVCNEEHRFLVAEQLRQVTDSVGGIILEPVGRNTAPAVAVAAMQVRKQFPDAVMLVLPADHVIRDVDAFAAAVAVGTAAAEQGALVTFGVVPDAPETGYGYIRAADAGTGSNLPDGVMPVAEFVEKPDRETAEGYVASGNYFWNSGMFLFRADRYLEELEIHAPAIFEASGAALEQAATDLDFLRLERGSFEACPSDSIDYAVMERTSRAAVVPLDAGWNDVGAWSALWGVESRDDDGNVRKGDVLVQNVTGSYIHSTSRLVAAVGLDDCVVVETSDAVLVASKDRVQDVKAIVQELKERGRPEALTHQRVYRPWGSYETIDMADRYQVKRIVVNPGATLSLQMHFHRAEHWVVVKGTALIRNGEKEITLSEDQSTYISLGTLHRLENPGKIPLELIEVQTGSYLGEDDIVRYDDKYGR
>NC_011059.1|WP_012506277.1|1884976_1885852_-|glucose-1-phosphate-thymidylyltransferase-RfbA
MKGIILAGGSGTRLYPVTKAVSKQLLPIYDKPMIYYPLSTLMLAGIREVLVISTPQDLPLFERVLGDGSDWGISLSYVEQPSPDGLAQAFLLGDEFIGGDDVSLILGDNIFFGYGFSGMLKDAVESVREERVANIFGYYVNDPERYGVAEFNESGRVLSIEEKPSDPKSNYAVVGLYFYPNEVVEVARSVKPSARGELEITSVNEEFLRQNRLKMSMLGRGFAWLDTGTHESFQEAGNFIETVEKRQGLKIACPEEIAWRNKWIDDDRLEELADPLMKSQYGVYLRQLLKR
>NC_011059.1|WP_012506276.1|1883927_1884473_-|dTDP-4-dehydrorhamnose-3,5-epimerase
MNVIETAIPDVLVFEPRIFGDERGYFFESFRQDFFEKHAGDVHFVQDNESRSHYGVLRGLHFQKAQYSQGKLVRVVEGAVLDVAVDIRKGSPWFGKHVAMHLNAEKKNMMWIPRGFAHGFVVLSETAVFTYKCDNYYAPEADAGIRWNDPALGIEWGVDASVIEVSEKDANLALLAEIGEW
>NC_011059.1|WP_012506287.1|1896592_1898101_+|Fic-family-protein
MVLDTTQNRPAGYAFLIEQYNVSALPNWHTSTVSKAGMLRKTMQDGQVESIFPPSYWPGDETGDHLEFALKYDGVNLGILSAVFDMIPQEEIAAWISSKPTGKYTRRIWLLYEFLTGRRLPLPDLTKGNYIELLESDRYYTATPGRRIQRQRVISNLLGGREFCPIIRRTEKLVSMQEIDLRKQCEELITSYPPELLRRALSYLYTKETRSSFEIEHIKPSASRTEKFIGLLEMAEHKDFCEKPLLIEVQNRIVDPRFQDTDYRPSQNYVGQTISFQRQLVHYVCPQPDDLPELMAGLLVAHQVMKEGAVPAIIHAAAISYGFVFMHPFEDGNGRIHRFLIHNILFLRSQIPKGLMFPVSAAMLKNPALYDHSLEAFSNPLMQLVDYDLDDLGQMTVQDESGAFYRYIDMTAQAEALYDFVKLTIEHELVEELDFLANYDKTRQAIQESVDMPDRLIDLFIRLCLQNNGRLSPKKRASHFGFLTDTELADLENAVQKEYTRN
>NC_011059.1|WP_012506288.1|1898804_1899038_-|type-II-toxin-antitoxin-system-prevent-host-death-family-antitoxin
MKVYTYSEARQKLSEVLEIARREEVVIRKRTGEMFSVVFRKPEVSPFDVPGVKTQALTDDILDAVREVRSREKGEVG
>NC_011059.1|WP_012506289.1|1899034_1899427_-|type-II-toxin-antitoxin-system-VapC-family-toxin
MVIADTNVFLAVLLEEPEREVLIKLTAGEVIIAPEVLPYEMGNALSALVKKGRIRAVDAGRVLQYARQIPVQLKPVDIGIALTIAVEAGIYAYDAYFIQTAISFRSPLLTLDRRMRRVAQDAGVAVVEIS
>NC_011059.1|WP_012506290.1|1900312_1902199_-|glutamine--fructose-6-phosphate-transaminase-(isomerizing)
MCGIVGYIGQQEAAPLLLKGLQRLEYRGYDSAGIAVLDGVRCDVLGGGMNDDAGVRVVKRKGNVASLGEALAGSNGAVSGATMGIGHTRWATHGDPSDRNAHPHVSADGQIALIHNGIIENHAALRVELRKHGYEFVSDTDSEVLVHLIDHLWKSIPFMNFEGAVREALSIVDGAYGICVISSREPDKLLVARNGSPLVIGVGEGEYFVASDAAPIVEHTRRVVYLSDGEMGVITRDGYTVKSIGNIVCEKGLTELDFDLEEIEKAGFEHFMLKEIFEQPEVMQDVMRGRVRLDEGRIQLGGIADQLEQLREAKRIVICACGTSWHAGLIGEYLIEEFARIPVEVDYASEFRYRSPIVGPGDVMIVISQSGETADTLAALRLAKEKGAMVVGICNVVGSTIARETDCGMYTHAGPEIGVASTKAFTAQVIVLTMLALALSKDRTMTDGEVMDALRCLNELPERVKRILDYNGEIQSIAEEYKNARNFLYLGRGYNFPVALEGALKLKEISYIHAEGYPAAEMKHGPIALIDEEMPVVVIAPKDDTYQKVLSNIQEVKARGGRVIAIATEGDEEIRELADHVMYVPEGKAFIMPLLTVIPLQLLSYYIATLRGCDVDRPRNLAKSVTVE
>NC_011059.1|WP_012506291.1|1902206_1902641_-|universal-stress-protein
MSDIRVILCPVNFSLESRAALAHAREIASSTGASIVLLHAIDLVGDDEGLVAMLAQEEDDEACPETRISMLADELAGDGCDVRYLLEYGDPAQVICKQAELLGADMIIMTTAARKGMKRLLMGSTAENVIRDAECPVVVVKGKK
>NC_011059.1|WP_012506293.1|1903144_1904176_-|dehydrogenase
MPIYRSRAPLRLGLAGGGTDVSPFSNTHGGFVLNATIDLYAQAILEPLNDGRIVFAAEDREENVVLEAEPILLDDDPLRLHRGIYNRIVKEFNNGYPLSFKLTTFADAPAGSGLGTSSTMVVCIIQAFSEWLGLSLGEYDIAHLAFEIEREELLLTGGKQDQYAAAFGGFNFIEFGPGNRVLVNPLRIKEDIRNELEASTILYYTGQSRDSAKIIEQQILSSQDKESRSLNAMFALKQDAIKIKEAVLRGDLAVYADILRQSWEAKKNLAKGVSNSELDMIFENALKSGALAGKLSGAGGGGFFMFFVPPAKRMRVLRELRKHGGEVMNFHFTSIGSQSWVQY
>NC_011059.1|WP_012506294.1|1904202_1904766_-|D-glycero-beta-D-manno-heptose-1,7-bisphosphate-7-phosphatase
MASSVRAAFIDRDGVINEERNYVYKIQDFVLLPGVLEALKIFQDTGFLLIVVTNQAGIARGYYDSKAVEELHFYMRSLFSDSGIMIDKIYYCPHHREGIVKKYAIDCNCRKPAPGMLIQAVNEFNINTAQSVLIGDKISDIQAGRRAGVGCNVLVESGHPFETSTRFLADYVVADLLAAAQLFSMRS
>NC_011059.1|WP_012506295.1|1904749_1905463_-|NTP-transferase-domain-containing-protein
MSIPCIILAGGLGTRLRSALPDLPKCLAPVAGRPFLEWQMKSLFRRGIHHFVLALGYGADKIIEVLHQPWAKEMSIDYVIEKEPLGTGGAIRFAMTDKLIDEVLVVNGDTFLNGDLSSLLEPLNRGSGEFMRMAAIHVSDRSRYGGVLVDQDKNVLAFIEKGRHDSGLINAGVYHIHISVFEEYLMPSFSLEAEVMPILVKKGNLKFCEVSGPFVDIGVPSDYYSFQAQHKYYGIEC
>NC_011059.1|WP_012506296.1|1905459_1906059_-|SIS-domain-containing-protein
MGILETIKKAISHSIEVKQDILEDKELIGEIIKVIDDLIKALNCGNRIIFAGNGGSAADAQHLAAEFVSRFQFDRPGLPALSLATDTSMITAIGNDYGYEKLFVRQLEAQSRKGDVFVGLTTSGKSPNILAAFDACNLLGVTSVALCGLGGDLEDKVDYLIRVPSIHTPRIQESHILIGHIICAEVEQQIFSHLAPSQK
>NC_011059.1|WP_012506297.1|1906391_1906982_-|adenylyl-sulfate-kinase
MKHIHPVFDQILGREDKERMLKQRGCVLWFTGLSGSGKTTIARHVEQELAGKGVLTQVLDGDNIRTGINNNLGFGEEDRVENIRRIAEVTKLFVHCGIVTLNCFISPTREMRQMAKDIVGADDFVEVFVDTSLYECEARDVKGLYKKARAGEIPNFTGIHEPFESPLDPDVHIVTEQQCVSECVSSVISFVIPRIF

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Crispr_ID: NC_011059_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_4

2174895-2175529

TypeIII

Consensus_repeat	Method
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	CRISPRCasFinder
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	CRT
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	PILER-CR

8 spacers

cas1,cas6,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5

The CRISPR arrays of NC_011059_4

>merge|NC_011059|4|2174895-2175529|CRISPRCasFinder,CRT,PILER-CR
TTCCCCATCCCCCTTACTCAATCGGGTCTTCCTACACTGGAATCACTGCTTGAAGACTGTAAAAGTTATGAAGAAGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACGCGAACGGAGTAATGACCGAGAAGATGCTCGGCGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACAAGGCTTATATGGGCGCCTACGAACTGGTTAATTATGACTCGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACGATGTGGTCTTGATGTTGTTTACACTCGACCAGTCATCAAAGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACAGAAAAATCTAAATGAAATAGATGTGTTTAGTTGGAGGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACCTGATGTTTGGCAACCTAAACAGCCTCGGCAACCTGTCGGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACAAACGACGCGATCTTGTTGCGTCAAGAAATGGTCCGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACACGCATCTTTACAAAGAAAGGCATCTACGTCTACATCTAAGTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC

>NC_011059|4|4|2174895-2175529|CRISPRCasFinder
TTCCCCATCCCCCTTACTCAATCGGGTCTTCCTACAC	TGGAATCACTGCTTGAAGACTGTAAAAGTTATGAAGAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCGAACGGAGTAATGACCGAGAAGATGCTCGGC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAGGCTTATATGGGCGCCTACGAACTGGTTAATTATGACTC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GATGTGGTCTTGATGTTGTTTACACTCGACCAGTCATCAAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AGAAAAATCTAAATGAAATAGATGTGTTTAGTTGGAG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	CTGATGTTTGGCAACCTAAACAGCCTCGGCAACCTGTCG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAACGACGCGATCTTGTTGCGTCAAGAAATGGTCC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCATCTTTACAAAGAAAGGCATCTACGTCTACATCTAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC

>NC_011059|4|2|2174895-2175529|CRT
TTCCCCATCCCCCTTACTCAATCGGGTCTTCCTACAC	TGGAATCACTGCTTGAAGACTGTAAAAGTTATGAAGAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCGAACGGAGTAATGACCGAGAAGATGCTCGGC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAGGCTTATATGGGCGCCTACGAACTGGTTAATTATGACTC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GATGTGGTCTTGATGTTGTTTACACTCGACCAGTCATCAAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AGAAAAATCTAAATGAAATAGATGTGTTTAGTTGGAG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	CTGATGTTTGGCAACCTAAACAGCCTCGGCAACCTGTCG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAACGACGCGATCTTGTTGCGTCAAGAAATGGTCC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCATCTTTACAAAGAAAGGCATCTACGTCTACATCTAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC

>NC_011059|4|3|2174970-2175529|PILER-CR
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCGAACGGAGTAATGACCGAGAAGATGCTCGGC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAGGCTTATATGGGCGCCTACGAACTGGTTAATTATGACTC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GATGTGGTCTTGATGTTGTTTACACTCGACCAGTCATCAAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AGAAAAATCTAAATGAAATAGATGTGTTTAGTTGGAG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	CTGATGTTTGGCAACCTAAACAGCCTCGGCAACCTGTCG
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	AAACGACGCGATCTTGTTGCGTCAAGAAATGGTCC
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC	GCATCTTTACAAAGAAAGGCATCTACGTCTACATCTAA
GTCTCAATCCCCCTTACTCAATCGGGTCTTCCTACAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_012506522.1\|2169422_2169842_-\|Hsp20/alpha-crystallin-family-protein	unknown	unknown	gnl\|CDD\|223149
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	cas10	cd09701_cas10_CAS-III-C	gnl\|CDD\|187832
NC_011059.1\|WP_012506518.1\|2162473_2162866_+\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506521.1\|2167705_2169346_+\|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase	unknown	unknown	gnl\|CDD\|131081
NC_011059.1\|WP_150084403.1\|2179330_2180665_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506526.1\|2174118_2174529_-\|aminoacyl-tRNA-hydrolase	unknown	unknown	gnl\|CDD\|181730
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_011059.1\|WP_012506529.1\|2178120_2179200_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	cas1	pfam01867_cas1_CAS-I:CAS-II:CAS-III	gnl\|CDD\|376633
NC_011059.1\|WP_012506536.1\|2187408_2188272_+\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	unknown
NC_011059.1\|WP_012506535.1\|2186998_2187412_+\|hypothetical-protein	cmr5gr11	mkCas0060_cmr5gr11_CAS-III-C	unknown
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|187890
NC_011059.1\|WP_012506519.1\|2162973_2166807_+\|magnesium-chelatase-subunit-H	unknown	unknown	gnl\|CDD\|237117
NC_011059.1\|WP_012506523.1\|2170027_2170918_-\|DUF4438-domain-containing-protein	unknown	unknown	gnl\|CDD\|379630
NC_011059.1\|WP_012506525.1\|2172683_2174066_+\|M23-family-metallopeptidase	unknown	unknown	gnl\|CDD\|366703
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	cd09657_cmr1gr7_CAS-III-C	gnl\|CDD\|273859
NC_011059.1\|WP_041702591.1\|2171093_2172326_-\|MgtC/SapB-family-protein	unknown	unknown	gnl\|CDD\|379065
NC_011059.1\|WP_012506517.1\|2158554_2162148_-\|autotransporter-outer-membrane-beta-barrel-domain-containing-protein	unknown	unknown	gnl\|CDD\|273608
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	gnl\|CDD\|377130
NC_011059.1\|WP_012506520.1\|2166856_2167558_+\|magnesium-protoporphyrin-IX-methyltransferase	unknown	unknown	gnl\|CDD\|236059

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_012506522.1\|2169422_2169842_-\|Hsp20/alpha-crystallin-family-protein	gnl\|CDD\|223149	COG0071, IbpA, Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones].	5.79465e-32
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	gnl\|CDD\|187832	cd09701, 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, inactivated palm domain and Zn-ribbon; signature gene for type III.	9.22996e-137
NC_011059.1\|WP_012506520.1\|2166856_2167558_+\|magnesium-protoporphyrin-IX-methyltransferase	gnl\|CDD\|236059	PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase; Validated.	8.17864e-135
NC_011059.1\|WP_012506521.1\|2167705_2169346_+\|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase	gnl\|CDD\|131081	TIGR02026, BchE, magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model represents the cobalamin-dependent oxidative cyclase, a radical SAM enzyme responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.	0
NC_011059.1\|WP_012506526.1\|2174118_2174529_-\|aminoacyl-tRNA-hydrolase	gnl\|CDD\|181730	PRK09256, PRK09256, aminoacyl-tRNA hydrolase.	1.56434e-58
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.45919e-44
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	gnl\|CDD\|376633	pfam01867, Cas_Cas1, CRISPR associated protein Cas1. Clustered regularly interspaced short palindromic repeats (CRISPRs) are a family of DNA direct repeats found in many prokaryotic genomes. This family of proteins corresponds to Cas1, a CRISPR-associated protein. Cas1 may be involved in linking DNA segments to CRISPR.	4.69908e-15
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|187890	cd09760, Cas6_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.	2.53526e-09
NC_011059.1\|WP_012506519.1\|2162973_2166807_+\|magnesium-chelatase-subunit-H	gnl\|CDD\|237117	PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.	0
NC_011059.1\|WP_012506523.1\|2170027_2170918_-\|DUF4438-domain-containing-protein	gnl\|CDD\|379630	pfam14505, DUF4438, Domain of unknown function (DUF4438).	3.50137e-170
NC_011059.1\|WP_012506525.1\|2172683_2174066_+\|M23-family-metallopeptidase	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.	1.09405e-42
NC_011059.1\|WP_041702591.1\|2171093_2172326_-\|MgtC/SapB-family-protein	gnl\|CDD\|379065	pfam13194, DUF4010, Domain of unknown function (DUF4010). This is a family of putative membrane proteins found in archaea and bacteria. It is sometimes found C terminal to pfam02308.	1.20668e-50
NC_011059.1\|WP_012506517.1\|2158554_2162148_-\|autotransporter-outer-membrane-beta-barrel-domain-containing-protein	gnl\|CDD\|273608	TIGR01414, Contains:_AIDA-I_translocator, outer membrane autotransporter barrel domain. A number of Gram-negative bacterial proteins, mostly found in pathogens and associated with virulence, contain a conserved C-terminal domain that integrates into the outer membrane and enables the N-terminal region to be delivered across the membrane. This C-terminal autotransporter domain is about 400 amino acids in length and includes the aromatic amino acid-rich OMP signal, typically ending with a Phe or Trp residue, at the extreme C-terminus. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis].	2.96921e-21
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	3.81731e-10
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. 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 model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	4.40313e-18

>NC_011059.1|WP_012506526.1|2174118_2174529_-|aminoacyl-tRNA-hydrolase
MRITDAIVIPDSEIEITAIRSQGPGGQNVNKVATAVQLRFVIASSSLPYRCCQRLYALRDCRISDAGVIVIKAGRYRTQESNRQDAFERFRQIICKALEVPKKRKVSRPTAGSREKRLERKTRRGQIKAMRKKIDL
>NC_011059.1|WP_012506525.1|2172683_2174066_+|M23-family-metallopeptidase
MNHDHRPLFSSRKGFSHNKKSFYIKAFTIISLSVLGLGYGIKSITPAAEKLYSSIFVNYDDELGITEESAVVEIEQGEVPEKNSIVENKIQRGESLYILLTANGLSPAEVNEVSQQLKGKFSIKSLRPGQSYRVEKDPENRFLSFSLQQSLISTLHLEKNLESGTFHVWQEIMEYDTRLASLTGTIESNLSLELQKNKRYSLIGQLQNLFASKINFRRDIHPGTTYKILYEENWLGEDYANSGNIMAAEISFNGNTYTAYRYTDAQGKTGYYDENGRSLNSFFLAKPCNYSRISSSFGYRRHPILGRKHFHGGIDLAAPTGTPVYAVADGKIVYRGRKGAAGNMITINHSNGYYTKYLHLSRFSSKHPYGSKVHQGDIIGYVGSTGRSTGPHLDFRVIKNGKLQNPLTALKSSSSTRGVSKAEMQNFMAQLSVFRAQLNESNVLVANLSKKSIETSTALN
>NC_011059.1|WP_041702591.1|2171093_2172326_-|MgtC/SapB-family-protein
MLGISLLLGLLVGLQREWSKAEGAGIRTYPMITVAGTVSALLAERFGGLVLFGGILVVGLLMAMMKVMMNLKLEAAEQPHTGPTTGIAALLMYLVGAMLALDLIAPAIAIGGGVALLLQWKRPLHGFVKRIGSSDIQAIFRLVLIAMVVLPVLPDRTFGPYDVLNPSHIWLMVVFIVGISVSGYLVSRFVGAKTGSLLGGLLGGLISSTATTISYARRSKTSPESSALAAMVIMIASTIVFFRVSFEVAVVAPDILPSIAPQFGIMIVLMSVIAAGAYVAARGETESVPEAQDPADLTAAVIFGALYAVILVAVAAAKEHFGEEGLYIVAVISGLTDMDAITLSTTRLIEAGRLSVETGWRMMLLGALSNIAFKAGAVAFLGHRRLFLRVALLFGLSFIGGVLLLLFWPT
>NC_011059.1|WP_012506523.1|2170027_2170918_-|DUF4438-domain-containing-protein
MLKTNDDRLVEFLLQCQPGPPKTRGTWQVDHEGKPFLLPSIGGITLNVQVGDSCFGWAGDHIEPGVSCTADTHKPFEHPNTSLQLYSCTGNRAEIVSGEAKGESGVVIGHHGGSEHIIVDFAREVKEKLTYNDTIIVRAKGQGLKLTDYPDISVFNLDPELLQRMPIRLGGDAVLEVPVTTVVPAACMGSGVGAAHVAKGDYDIMTSDEETVRKYHLDALRFGDFVALMDHDNRYGRAYRQGAVSIGIVVHSDCLVAGHGPGVTTLMTTASSAIRPVIDPSANIADLLQIGTRLDS
>NC_011059.1|WP_012506522.1|2169422_2169842_-|Hsp20/alpha-crystallin-family-protein
MAIKLYGRDPLKMFENVFNDTVSPFVSSMVAHSFKVDVSEDEMAIYIDADMPGMKKEDVKISMDDDVMTICAERTHEEEEKKKDYHRIERTYGSMSRSFSVGDNVDVDKIEASYDNGVLHIVVPKKEPVEKKSKDISIK
>NC_011059.1|WP_012506521.1|2167705_2169346_+|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase
MKILMLQPNYHSGGAEIAGNWTPSWVAYIGGALKKVGFTQIRFVDAMADDLPDETIEEIIRTNEPDVVLTTNITPSIFKAQDIMKLAKKVNPKIRTIMGGIHSTFMYPQVLSEAPETDYVIRGEGEEIAVNLIKAIAAGTDLQDRENITGIAYINEEGKVHATPAHPVIEDLDDLTPDWSLYDWDKYIYTPLNCRLAVPNFARGCPFTCTFCSQWQFWRRYRARSPKHFVDEIEILVKKYDVGFFILADEEPTINKQKFVSLCQELIDRDLGVTWGINTRVTDIMRDEDLLPFYRKAGLVHVSLGTEAASQMNLNRFRKETTIEENKYAIKLLQKNGIVAEAQFVMGLEHETPQTIEETYQLCKDWDPDMANWTIYTPWPFSDLFKELGDRVEVRDYSRYNFVSPIIKPDNMEREDVLKGVLKSYGRFYARKTFFSYPWIKDPYVRKYMLGCLKAFAQTTLTKRFYDIDRVSTKNRKIEIDLGFDKSRILTQAEVKNLKELRPEMVADMSFGLKEAGYQREHDEHDWGEFDESTIKDRNSSTVRNC
>NC_011059.1|WP_012506520.1|2166856_2167558_+|magnesium-protoporphyrin-IX-methyltransferase
MSSSSSFNAKEHQKMLRSYFNGNGFSRWASIYGNDKLSTVRSTVRQGHAVMMDEAFAWIEKLNLPKGATILDAGCGTGLFSIRLAENGYRVKAVDIASQMVGKAKEDATAKGVANMIDFEVNTIEEVKGQYDAVVCFDVLIHYPAEGFVNAFQNLSSLTKSPIIFTYAPYNRILAFQHWLGGYFPKKERRTTIQMIRDEQMQEAMQSTKMAVKTKKKISFGFYHTMLMHAERR
>NC_011059.1|WP_012506519.1|2162973_2166807_+|magnesium-chelatase-subunit-H
MRFLFLTMEATNNCALKAAAASLRKDFAIDLEVSIINIGLHNKQETWLELEKGIASADFIFGSMLFSEEIVRPLEELLDTADCPVCMITSNPALISKTKIGRFSLKKLQREEEEKNIFMQWAKKLRPAKQHGETQRQLALVRNVSKLMKHIPGKARDIHTFIAAHQFWLNGSEENMRRFLSLLIDRYIPGEKGKLPQEDPLFYPDTAICHPDAPEPLYTVKAYQEWKSRRKKKGKEGSVMMLVMRATVLGRNMQHIDYLCRSLEAQGLDVSIVYCSGLDFRPALNAFVGKDSPSKLSPDLLLNTTGFSLVGGPAENKSKEAVEALKQLDIPYMNLVPLSFQTIAQWQSNAVGLTPLQTALCVAVTELDGAIEPHVYAGTSETSDRTIPLTREIQSITARILQQVRLGKKEPSEKKIAIVLFNFPPNLGNAGTAAYLDVFDSLLRLLEALRDAGYRVDMPAGRDEMKTKILDGNRDIYGTDGHVCAHLPVETYRSIAPHYHEIEAFWGDAPGEILNDGTSFHILGFTFGNIFVGQQPSFGYERDPMRLLMAKDAAPNHAFAAFYAWIEQIYHADAVIHFGTHGALEFMPGKQTGLSASCWPKRLIGSLPNFYYYSVNNPSEGAIAKRRGFATLISYLTPPLEHAGLYKGLRTLRDLIESWYSNPADDLLEEIDTLAATLELTPRSPEVTVEASLARLNHELYEVEERMIPLGLHKIGSSPQPEALVDQLALLGCHPRAELENRSLPEYICHLQHIDYDELNRQRSTSHSAADKWQELISITREALRQFIGTIPPQESAATPLRTMLEASYPIRRSNAERYLHQKAGVKASTMTRFWDFMQRVLLGCTENREIQAMLEALDGRYIEPSPGNDLVRNPDIVPTGRNIHSLDPFSIPSSHAQKRGKLSAEALLAEYRAENGALPESIAIVLWGTDNLKSDGEGVAQALALVGAATVTDELGKVSNVRLIPPEELQRPRIDIVVTVSGIFRDLLSHQIRLLDKAVRLAAMADEPDSLNFIRKHVLQESQEKNLSMEQAANRIFSNAPGSYGANVNHLIENSGWQQEQELAETFINRKSFAVNAEGTWEECPEVLTSALRHVSLTFQNIDSYEIGISDIDHYYEYLGGISKTVELISKKKPSIMVGDINGYGEQQKICSLEKMVSLESRTKLLNPKWYESMLEHGYEGVREIESHLSNTYGWSATASAVKDWTYQQFNETYLQDPEMLERLKSLNLHATMSMTRRLLEANSRGFWNTDSRTIDELQELYADLETRMEGAGDEP
>NC_011059.1|WP_012506518.1|2162473_2162866_+|hypothetical-protein
MALSSRSNIVKNLWRFFEILFFFMVSVLGYTFLAKTSVNAKSKSREHLSRPDCVERLYDASVETLYLPFVHSGAWLHALSSKPDTEHASSCSAVIPLFLPVIADSPAPPAAPNHLPAPHNLFQQNPVLLN
>NC_011059.1|WP_012506517.1|2158554_2162148_-|autotransporter-outer-membrane-beta-barrel-domain-containing-protein
MKKRLSLIMLLVVLGAARAESADWTVSDPAASGSNTLSEAIDDLNSSGNDGDRIVFTNTVGPNISLGLNILDPITKSVEFVNDYTELDLTSSSLTGSHLLATESSDVELTFPANFNLHGYGLNNVTGLFGYQGVMIDGNLPNDISAESTEGDNAYGILGRGDVIDPIGYALPAPMSYDAVYDGDITISGSLNGSISAVSAANGAYGLKAGGNDSYTVDVLRKKYWVAGPWIHWYDADGVNISFAGDIDIEDDFSGDVTATAAGSDAYGFYAQGDPPLSLYTLSDDSEGDITIGGVLSGDVTATASGGENAYGFRAYNDISIGSVGRRSDVVATADTDNAYGFRAVTGSITIDGDFGGDVWAQAINGEDAYALRAGGLLTDSDITIGGSIGTRSDITALAGTDNAYGLSASRMISIGEDLDGDIWAQTGSGDNAYGLRAGTDITITGSVGERSDITAIAGGNIALGMFAGDDISMSSLDGQVTATAQNDWAIGLAALGDIAITDQDACLAGDVTATATDGKASAGLVALGMINGGDDGDGGYNPMHISGTVTATSGDGSAVGIMAWDAMNLRITGDISGIDSDNDVSGNDEGFAIRSGRFNLLFDGGDFNGSTSSAEDMIEVADGGSLTGKVFLGDGNDAMRVIGEDADPLNDAIISTVPVLDGGEGAEDLLTFDDWTGTLGNEVVNWETINLDGESVVNLGGSKTAENLYAAPGDDYAAIKTFADGQFVTMTIGEDARLVAQGAVPGSSAGEYVLVGNLNNNGVLDLLDDEVNDVFRIVSNDAGGGNYTAASELWIDADLSVSGVPSDEYVEIEGDATGTTTVLLNNVVSHVAVTDGDGIEIVSVGGTSDDDAFVLGNPNDFGPFAVDIARGTTDTESWFAVSPGYREEAAVLQAVTPFIERLGYDSVMKFHERRAYGWFRNDGGEQESWWVRMTGSKYRLGLEGDAATELDGYTGWFQVGADLIAEGDKDTRFDFGLFAGVGYGQADVDGLRSDTAGELSLTAYGIGTYLTLHDRGNWYLDAVAQAMYSDLAIDYLTEDRQKPDAWSYIASLETGGCIPVGSSFRFEPQAQLIYQHTEGISLSTLVGEVNIEDHDGLQGRLSLTGIAGACKDDLNPFFEVTLVRDFSDDNQVKYLDDSVELNSNPEKWFLGGAIGLSREVSEKNDLGYYLKAGALYGMDDLDSYSYSVMAGLKKSF
>NC_011059.1|WP_012506527.1|2175841_2176066_-|CRISPR-associated-protein-Cas1
MTIEDAAFLRTLYIQEQGTVLRIENERFRVTVGDDDDEDIVNIPSIKVGQIVIFGACMVTPAAMRFCLSVGRPD
>NC_011059.1|WP_012506528.1|2176062_2177061_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MYSSFTSLSIARFRFTIEPTEEISLPEYKGSAFRGGFGHAFKRATCITRDRYCEPCILKFSCTYFKVFESKVSRETAERLRLGGDAPHPFIIEPPLTRQGYFQPGDRLSFSLVLIGTAIGQLPFFVYAFMILGESFGIGKGRGRFRLVSVEDENGKQLYDNGNLAGGFVIRSADEIMKTDVSSDDDRMKLRFETPLRMKTAFGRDRKALVTGMHEPADFRVLLKSLYHRAFVLGQLYGEGVDEAEYDSRNLPLVDGTVAVENADIFWYDWERFSQRQERRMKLGGVMGEVTFSGKVAEYLPLFRLGEYLHIGKGTGFGLGKYRIAKESGKTP
>NC_011059.1|WP_012506529.1|2178120_2179200_-|hypothetical-protein
MTTSLKVSFIWTRTFFQLFDNSCIQNSPYDFFVKPSAYKDKIKSLYTDESSLTLPWKLTGKNNLTNWFWKYYLNDIDPLSAPHETIANRCYPLYVPVRKSLTKQITVNWPSSGGSQNRGSFEGFFYRHGVAVVCTFSVHGCTSLKDAVEQGMSLRHDPLFSIPSTTSNVALTTVGDFCRNLLSEEIKVVTDWFDEEPFSLVTVVEGELNQEAQQGDSIQRALEALACWDKTWEKRELPVLSDHTISMKNNHAADIMYGHANSRVLWIPRLFIPGNNYALFWYSRNLLMATMQVKSFRDFLVRAADADRIKPGTRLGGYARQIGEIIRNMEKGLKTYRTLSAYRQIQDDKKLQAVLSAIS
>NC_011059.1|WP_150084403.1|2179330_2180665_-|hypothetical-protein
MKSFLLLCLMITLMAGVSQAGEKTDDLVMVNLQSTLTELNDFRPGYIYLVVANKSDTLLNVDRIEIAEYPDFIDVKKSSLDSVVVSREKKSLFYPDKKTINAGESEVYEVFITASDQVKPGKHLLLFNVFYNGWVSAKSENASIAEKSPRDALSPKVSKTGSLTLSHELDVKVFGENEILGALSNAVTFLMMPGFIMVIVFAMVWKISAPVSYQEKLPAWFKETKVADLQFWVIAITMSLIMARWLYPILTQLFTSGRRNYLYGYGFYDIVMMWGFSVLVGGFSGLIAGWVVSLYRKTKYSKAIHGDENPLELLQKAVVLGVNQSWLKKISVKKTGKSGYIVEQDAVDKDSLWVIPRIQVTWQAGADELNERFEQEIYDPKTKLAVLLETLAEGERQKQAGKGLEDIDWEKNTRFIERPLVVKKADFDSCHDTENIFSCDTSKQ
>NC_011059.1|WP_081429339.1|2180823_2181984_+|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MSWHWPNVRQEPENILQMPNSLQKVPPITLSTLTPLWTGGPQAGVVDRIHETGMIGSLRWWFEVLVRGVGGKVLSPNGEKCAILDLEKYKKLTTQQKNDPEKLKECGLCDASLIFGATNWKRKFRLEIEDHTSDIHLGNISVNTGSNKPAKWFFNNHARKGNLTLKIISLTRDRKLFDPAIIAGLVQFVSDWGGLGARNQMGFGIVRPEQALDARPLYEHLARIRKQATNQQLPSLDNMFFVQLKPQDQSRFDPEASFTLKHELRKKIQEEEKRTAELQSKKPDDTLSHFIMGTIKPEKLASKIFISRPFDKDETSTIRLWGWLPKQSSRYDSSWNRQSIRQLIYQHIEQNYHIEPDDWVELNHPDPKLKNSEDKFLKTLLRIDEG
>NC_011059.1|WP_012506532.1|2181988_2183068_+|hypothetical-protein
MIHDYAAFQYSQLQDLVEKLDRTSKNLDSRNKKIKKEAEKLIEKIASKTISIDPHTAYLWFAAQTDTEHNQKLTSAIREQWTKRTPHQHLDQQHGIRTIPDRDKLDLLPPFSFVLSFGFELRKPFLSKDDEAFHLLDNPVRKDKVFKTPVIAASGWKGALRYALWQLGYPEDSPSVDRLFGNPRECSQHEKLHAGRLQFFSTHFNSIENSIGYEIITPHDRETGTVNSRQGPILLETIRAAENNQADFTLAYIPLFYDSNIYKEIVTDFHILVRGIHAMMTVYGFGAKTSSGFGVAKDSVQKGSISLVLPDPVMKEINATQASEGSKATVMVKPKPFSTLTELSATEILPDLSFDKEGV
>NC_011059.1|WP_012506533.1|2183064_2186007_+|hypothetical-protein
MSERTIPAELKLSDSHRQAILYIELLGLIHDLGKLTDTFLRKEASNASNQGKKYEYRLFVDPRKLYTQAKTCKTVHNWRKNADNKACAFNDRPDLTDTLRSVKLTAWDGIEYCLAELAPFLAKTGFWKDNDKWMKELGKNMQPGTLIGFLHGIGHFEKESSGNNQTQAYINTWRSTPFGYDEEQLPTGSENNLTKTLQQLPLSQEEIQVVVQSAKEREQWLEKMENGLSKGLADTRRPINDVTLWDWGYLVASLAKAAAHYLFHHRWPESPEQLSFRTLRINLDRLQLYAESDRITDLLGKQNAIEEAYKKVRQYLEFDLALGNRIHHDETGDYYLIPGVLPGEDPKTALRIAIQNIFRKESLEDCLPRVHFGTSVQAGHLDKKNQKNATRDNNAVIETIRELLVNPRRDARAEAPVQNNNNLSLFEDEWKNGKSENAERCSVCGLRPVGYPVTGDLPEVEKNLEPWALEKKAKERNLCRLCLNRRGRRAKKWAEQWAGEAQHSKPPMTIWTDEVADDDGRIALFVGSFGLDHWLDGSALETIRLSKNTGKNPSPARLFRITETARSFWTTINSEVLQEKVNTESCRIVLTPANTDKLDLGKFHTYELQCNPHGMRISFVWDSERGYFLSVENLNGLMKRHGYKQNMLSMITTVKNTFENKTCTLYQPSSYGTASSRRATICIKTANLSTIHYKPVIPLLAEPSVCMSLIPADKAVDVSLKVFEKYQQEMSRVQDRLPMGIGLVFFPRRTPIRAVMEAGRAMLNMLQSKPEEEWKVNDLKRQTNTIDLTFNNSISFSYKTSYGKDSEIPDIWHLCCFDSEGKAKQLNELTTESHVKVYPGRFDFEFLDTSGRRFDIYYDEHGRRPRNTRPFYLTDIQRIADLWQYIRSLSKSQIYQVIELIETKRTEWHVAPGTKDERTEVFRKFVQSTLAGAEWPTTHSWHTISEQETLVQAGVDGVLTDVAELYISILKSPSTENQKA
>NC_011059.1|WP_012506534.1|2186003_2187002_+|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MTTPETTTNYKRLTYLFMCTDPVHVGTGGYRLGRVDNSIVREPGTNVPKIPGSSLHGAARTYAASVYNKPSCAGQGKQKRNGEQTSKQSGHCGQDTCQVCYTFGYSKNTGERSAYSGTVNVFDAHIILFPVHSLEGPVWITTTSRLKRMISTTPDDDLGDPEHEETITPLFELKENFLTLGWLVVNADPMKKVDNLPDTLPEQIKKHIVLVHENLFSHIVNSNLEIRTSVAINPERGAAEDGALFTYEAIPRTTILAADAVIDDYRKMFSLDNQSENKTENSGNDSVNPQEVLEKGLNLISWLGIGGMGTRGFGRMEMLGQLDSKQYGGENL
>NC_011059.1|WP_012506535.1|2186998_2187412_+|hypothetical-protein
MSEKTAILNLDYLAAKHAQQLVEDHSDIENTVTKALGVLQEHGVYACFLYLLAKEKEGNKGKNTAGHMIKLLQESKLVPEDNDLKKPIEILQYANEHISSAKLKKLLLIKDLLELMLIYSRYHANAMEPTNSREENT
>NC_011059.1|WP_012506536.1|2187408_2188272_+|hypothetical-protein
MTAWKVFHVIFRLNAPIHIGCGKSGNLQRTYPFVTGRVFWGALTARITRNNPEALQQHGHRAYRLIGEQIHREITYTYFYPAVKSSLDFEVRWPWEDGFAARHIRTYASTALTYPEQQAEEASLHEIEYLSPVTCDTVEQVYLRGYVFVKESSTLEWQKALGQLQFGGERCYGWGDVETILNDEQTATPELFDGHAKFMDDDLPVIRLSDSSANHLLAHTEANCCQAHGQTEPLVGREWRSDNDVNRYAGQHIAFNAFCFRPGSTVASLPCQFQIGKYGIWKTKSPH

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Crispr_ID: NC_011059_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_5

2177296-2177690

TypeIII

Consensus_repeat	Method
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	CRISPRCasFinder
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	CRT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	PILER-CR

5 spacers

cas6,cas1,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5

The CRISPR arrays of NC_011059_5

>merge|NC_011059|5|2177296-2177690|CRISPRCasFinder,CRT,PILER-CR
TCCCCCATCCCCTGTAGCTAATCGGGTCTTCAAACTTATGCGGGTGACACGTACTGTGGTCCAGTTGCAAAGTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAACGAAACACTCAGTACAGCTATGTGATTTCGGGATTCTATGTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAACAAGTGGTTGAGGTTCCTGCAGCACATGTTGGTAAGAAATGTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAACCAGACATCCCCCATGTCTTTTGTATGAACTGTAATTCGTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAACAATGACGACAGAAAAGCTGACGAAAAAGAATGCAGGTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC

>NC_011059|5|5|2177296-2177690|CRISPRCasFinder
TCCCCCATCCCCTGTAGCTAATCGGGTCTTCAAAC	TTATGCGGGTGACACGTACTGTGGTCCAGTTGCAAA
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	GAAACACTCAGTACAGCTATGTGATTTCGGGATTCTAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AAGTGGTTGAGGTTCCTGCAGCACATGTTGGTAAGAAAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	CAGACATCCCCCATGTCTTTTGTATGAACTGTAATTC
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AATGACGACAGAAAAGCTGACGAAAAAGAATGCAG
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC

>NC_011059|5|3|2177296-2177690|CRT
TCCCCCATCCCCTGTAGCTAATCGGGTCTTCAAAC	TTATGCGGGTGACACGTACTGTGGTCCAGTTGCAAA
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	GAAACACTCAGTACAGCTATGTGATTTCGGGATTCTAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AAGTGGTTGAGGTTCCTGCAGCACATGTTGGTAAGAAAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	CAGACATCCCCCATGTCTTTTGTATGAACTGTAATTC
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AATGACGACAGAAAAGCTGACGAAAAAGAATGCAG
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC

>NC_011059|5|4|2177367-2177690|PILER-CR
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	GAAACACTCAGTACAGCTATGTGATTTCGGGATTCTAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AAGTGGTTGAGGTTCCTGCAGCACATGTTGGTAAGAAAT
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	CAGACATCCCCCATGTCTTTTGTATGAACTGTAATTC
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC	AATGACGACAGAAAAGCTGACGAAAAAGAATGCAG
GTCGCAATCCCCTGTAGCTAATCGGGTCTTCAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|238121
NC_011059.1\|WP_012506522.1\|2169422_2169842_-\|Hsp20/alpha-crystallin-family-protein	unknown	unknown	gnl\|CDD\|223149
NC_011059.1\|WP_012506520.1\|2166856_2167558_+\|magnesium-protoporphyrin-IX-methyltransferase	unknown	unknown	gnl\|CDD\|236059
NC_011059.1\|WP_012506521.1\|2167705_2169346_+\|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase	unknown	unknown	gnl\|CDD\|131081
NC_011059.1\|WP_150084403.1\|2179330_2180665_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506526.1\|2174118_2174529_-\|aminoacyl-tRNA-hydrolase	unknown	unknown	gnl\|CDD\|181730
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_011059.1\|WP_012506529.1\|2178120_2179200_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	cas1	pfam01867_cas1_CAS-I:CAS-II:CAS-III	gnl\|CDD\|376633
NC_011059.1\|WP_012506536.1\|2187408_2188272_+\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	unknown
NC_011059.1\|WP_012506535.1\|2186998_2187412_+\|hypothetical-protein	cmr5gr11	mkCas0060_cmr5gr11_CAS-III-C	unknown
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|187890
NC_011059.1\|WP_012506519.1\|2162973_2166807_+\|magnesium-chelatase-subunit-H	unknown	unknown	gnl\|CDD\|237117
NC_011059.1\|WP_012506523.1\|2170027_2170918_-\|DUF4438-domain-containing-protein	unknown	unknown	gnl\|CDD\|379630
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	unknown	unknown	gnl\|CDD\|226276
NC_011059.1\|WP_012506525.1\|2172683_2174066_+\|M23-family-metallopeptidase	unknown	unknown	gnl\|CDD\|366703
NC_011059.1\|WP_041702591.1\|2171093_2172326_-\|MgtC/SapB-family-protein	unknown	unknown	gnl\|CDD\|379065
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	cas10	cd09701_cas10_CAS-III-C	gnl\|CDD\|187832
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	gnl\|CDD\|377130
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	cd09657_cmr1gr7_CAS-III-C	gnl\|CDD\|273859

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_012506522.1\|2169422_2169842_-\|Hsp20/alpha-crystallin-family-protein	gnl\|CDD\|223149	COG0071, IbpA, Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones].	5.79465e-32
NC_011059.1\|WP_012506520.1\|2166856_2167558_+\|magnesium-protoporphyrin-IX-methyltransferase	gnl\|CDD\|236059	PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase; Validated.	8.17864e-135
NC_011059.1\|WP_012506521.1\|2167705_2169346_+\|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase	gnl\|CDD\|131081	TIGR02026, BchE, magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model represents the cobalamin-dependent oxidative cyclase, a radical SAM enzyme responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.	0
NC_011059.1\|WP_012506526.1\|2174118_2174529_-\|aminoacyl-tRNA-hydrolase	gnl\|CDD\|181730	PRK09256, PRK09256, aminoacyl-tRNA hydrolase.	1.56434e-58
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.45919e-44
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	gnl\|CDD\|238121	cd00200, WD40, WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.	1.16438e-83
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	gnl\|CDD\|376633	pfam01867, Cas_Cas1, CRISPR associated protein Cas1. Clustered regularly interspaced short palindromic repeats (CRISPRs) are a family of DNA direct repeats found in many prokaryotic genomes. This family of proteins corresponds to Cas1, a CRISPR-associated protein. Cas1 may be involved in linking DNA segments to CRISPR.	4.69908e-15
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	gnl\|CDD\|226276	COG3753, COG3753, Uncharacterized protein conserved in bacteria [Function unknown].	4.56159e-11
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|187890	cd09760, Cas6_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.	2.53526e-09
NC_011059.1\|WP_012506519.1\|2162973_2166807_+\|magnesium-chelatase-subunit-H	gnl\|CDD\|237117	PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.	0
NC_011059.1\|WP_012506523.1\|2170027_2170918_-\|DUF4438-domain-containing-protein	gnl\|CDD\|379630	pfam14505, DUF4438, Domain of unknown function (DUF4438).	3.50137e-170
NC_011059.1\|WP_012506525.1\|2172683_2174066_+\|M23-family-metallopeptidase	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.	1.09405e-42
NC_011059.1\|WP_041702591.1\|2171093_2172326_-\|MgtC/SapB-family-protein	gnl\|CDD\|379065	pfam13194, DUF4010, Domain of unknown function (DUF4010). This is a family of putative membrane proteins found in archaea and bacteria. It is sometimes found C terminal to pfam02308.	1.20668e-50
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	gnl\|CDD\|187832	cd09701, 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, inactivated palm domain and Zn-ribbon; signature gene for type III.	9.22996e-137
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	3.81731e-10
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. 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 model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	4.40313e-18

>NC_011059.1|WP_012506528.1|2176062_2177061_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MYSSFTSLSIARFRFTIEPTEEISLPEYKGSAFRGGFGHAFKRATCITRDRYCEPCILKFSCTYFKVFESKVSRETAERLRLGGDAPHPFIIEPPLTRQGYFQPGDRLSFSLVLIGTAIGQLPFFVYAFMILGESFGIGKGRGRFRLVSVEDENGKQLYDNGNLAGGFVIRSADEIMKTDVSSDDDRMKLRFETPLRMKTAFGRDRKALVTGMHEPADFRVLLKSLYHRAFVLGQLYGEGVDEAEYDSRNLPLVDGTVAVENADIFWYDWERFSQRQERRMKLGGVMGEVTFSGKVAEYLPLFRLGEYLHIGKGTGFGLGKYRIAKESGKTP
>NC_011059.1|WP_012506527.1|2175841_2176066_-|CRISPR-associated-protein-Cas1
MTIEDAAFLRTLYIQEQGTVLRIENERFRVTVGDDDDEDIVNIPSIKVGQIVIFGACMVTPAAMRFCLSVGRPD
>NC_011059.1|WP_012506526.1|2174118_2174529_-|aminoacyl-tRNA-hydrolase
MRITDAIVIPDSEIEITAIRSQGPGGQNVNKVATAVQLRFVIASSSLPYRCCQRLYALRDCRISDAGVIVIKAGRYRTQESNRQDAFERFRQIICKALEVPKKRKVSRPTAGSREKRLERKTRRGQIKAMRKKIDL
>NC_011059.1|WP_012506525.1|2172683_2174066_+|M23-family-metallopeptidase
MNHDHRPLFSSRKGFSHNKKSFYIKAFTIISLSVLGLGYGIKSITPAAEKLYSSIFVNYDDELGITEESAVVEIEQGEVPEKNSIVENKIQRGESLYILLTANGLSPAEVNEVSQQLKGKFSIKSLRPGQSYRVEKDPENRFLSFSLQQSLISTLHLEKNLESGTFHVWQEIMEYDTRLASLTGTIESNLSLELQKNKRYSLIGQLQNLFASKINFRRDIHPGTTYKILYEENWLGEDYANSGNIMAAEISFNGNTYTAYRYTDAQGKTGYYDENGRSLNSFFLAKPCNYSRISSSFGYRRHPILGRKHFHGGIDLAAPTGTPVYAVADGKIVYRGRKGAAGNMITINHSNGYYTKYLHLSRFSSKHPYGSKVHQGDIIGYVGSTGRSTGPHLDFRVIKNGKLQNPLTALKSSSSTRGVSKAEMQNFMAQLSVFRAQLNESNVLVANLSKKSIETSTALN
>NC_011059.1|WP_041702591.1|2171093_2172326_-|MgtC/SapB-family-protein
MLGISLLLGLLVGLQREWSKAEGAGIRTYPMITVAGTVSALLAERFGGLVLFGGILVVGLLMAMMKVMMNLKLEAAEQPHTGPTTGIAALLMYLVGAMLALDLIAPAIAIGGGVALLLQWKRPLHGFVKRIGSSDIQAIFRLVLIAMVVLPVLPDRTFGPYDVLNPSHIWLMVVFIVGISVSGYLVSRFVGAKTGSLLGGLLGGLISSTATTISYARRSKTSPESSALAAMVIMIASTIVFFRVSFEVAVVAPDILPSIAPQFGIMIVLMSVIAAGAYVAARGETESVPEAQDPADLTAAVIFGALYAVILVAVAAAKEHFGEEGLYIVAVISGLTDMDAITLSTTRLIEAGRLSVETGWRMMLLGALSNIAFKAGAVAFLGHRRLFLRVALLFGLSFIGGVLLLLFWPT
>NC_011059.1|WP_012506523.1|2170027_2170918_-|DUF4438-domain-containing-protein
MLKTNDDRLVEFLLQCQPGPPKTRGTWQVDHEGKPFLLPSIGGITLNVQVGDSCFGWAGDHIEPGVSCTADTHKPFEHPNTSLQLYSCTGNRAEIVSGEAKGESGVVIGHHGGSEHIIVDFAREVKEKLTYNDTIIVRAKGQGLKLTDYPDISVFNLDPELLQRMPIRLGGDAVLEVPVTTVVPAACMGSGVGAAHVAKGDYDIMTSDEETVRKYHLDALRFGDFVALMDHDNRYGRAYRQGAVSIGIVVHSDCLVAGHGPGVTTLMTTASSAIRPVIDPSANIADLLQIGTRLDS
>NC_011059.1|WP_012506522.1|2169422_2169842_-|Hsp20/alpha-crystallin-family-protein
MAIKLYGRDPLKMFENVFNDTVSPFVSSMVAHSFKVDVSEDEMAIYIDADMPGMKKEDVKISMDDDVMTICAERTHEEEEKKKDYHRIERTYGSMSRSFSVGDNVDVDKIEASYDNGVLHIVVPKKEPVEKKSKDISIK
>NC_011059.1|WP_012506521.1|2167705_2169346_+|magnesium-protoporphyrin-IX-monomethyl-ester-anaerobic-oxidative-cyclase
MKILMLQPNYHSGGAEIAGNWTPSWVAYIGGALKKVGFTQIRFVDAMADDLPDETIEEIIRTNEPDVVLTTNITPSIFKAQDIMKLAKKVNPKIRTIMGGIHSTFMYPQVLSEAPETDYVIRGEGEEIAVNLIKAIAAGTDLQDRENITGIAYINEEGKVHATPAHPVIEDLDDLTPDWSLYDWDKYIYTPLNCRLAVPNFARGCPFTCTFCSQWQFWRRYRARSPKHFVDEIEILVKKYDVGFFILADEEPTINKQKFVSLCQELIDRDLGVTWGINTRVTDIMRDEDLLPFYRKAGLVHVSLGTEAASQMNLNRFRKETTIEENKYAIKLLQKNGIVAEAQFVMGLEHETPQTIEETYQLCKDWDPDMANWTIYTPWPFSDLFKELGDRVEVRDYSRYNFVSPIIKPDNMEREDVLKGVLKSYGRFYARKTFFSYPWIKDPYVRKYMLGCLKAFAQTTLTKRFYDIDRVSTKNRKIEIDLGFDKSRILTQAEVKNLKELRPEMVADMSFGLKEAGYQREHDEHDWGEFDESTIKDRNSSTVRNC
>NC_011059.1|WP_012506520.1|2166856_2167558_+|magnesium-protoporphyrin-IX-methyltransferase
MSSSSSFNAKEHQKMLRSYFNGNGFSRWASIYGNDKLSTVRSTVRQGHAVMMDEAFAWIEKLNLPKGATILDAGCGTGLFSIRLAENGYRVKAVDIASQMVGKAKEDATAKGVANMIDFEVNTIEEVKGQYDAVVCFDVLIHYPAEGFVNAFQNLSSLTKSPIIFTYAPYNRILAFQHWLGGYFPKKERRTTIQMIRDEQMQEAMQSTKMAVKTKKKISFGFYHTMLMHAERR
>NC_011059.1|WP_012506519.1|2162973_2166807_+|magnesium-chelatase-subunit-H
MRFLFLTMEATNNCALKAAAASLRKDFAIDLEVSIINIGLHNKQETWLELEKGIASADFIFGSMLFSEEIVRPLEELLDTADCPVCMITSNPALISKTKIGRFSLKKLQREEEEKNIFMQWAKKLRPAKQHGETQRQLALVRNVSKLMKHIPGKARDIHTFIAAHQFWLNGSEENMRRFLSLLIDRYIPGEKGKLPQEDPLFYPDTAICHPDAPEPLYTVKAYQEWKSRRKKKGKEGSVMMLVMRATVLGRNMQHIDYLCRSLEAQGLDVSIVYCSGLDFRPALNAFVGKDSPSKLSPDLLLNTTGFSLVGGPAENKSKEAVEALKQLDIPYMNLVPLSFQTIAQWQSNAVGLTPLQTALCVAVTELDGAIEPHVYAGTSETSDRTIPLTREIQSITARILQQVRLGKKEPSEKKIAIVLFNFPPNLGNAGTAAYLDVFDSLLRLLEALRDAGYRVDMPAGRDEMKTKILDGNRDIYGTDGHVCAHLPVETYRSIAPHYHEIEAFWGDAPGEILNDGTSFHILGFTFGNIFVGQQPSFGYERDPMRLLMAKDAAPNHAFAAFYAWIEQIYHADAVIHFGTHGALEFMPGKQTGLSASCWPKRLIGSLPNFYYYSVNNPSEGAIAKRRGFATLISYLTPPLEHAGLYKGLRTLRDLIESWYSNPADDLLEEIDTLAATLELTPRSPEVTVEASLARLNHELYEVEERMIPLGLHKIGSSPQPEALVDQLALLGCHPRAELENRSLPEYICHLQHIDYDELNRQRSTSHSAADKWQELISITREALRQFIGTIPPQESAATPLRTMLEASYPIRRSNAERYLHQKAGVKASTMTRFWDFMQRVLLGCTENREIQAMLEALDGRYIEPSPGNDLVRNPDIVPTGRNIHSLDPFSIPSSHAQKRGKLSAEALLAEYRAENGALPESIAIVLWGTDNLKSDGEGVAQALALVGAATVTDELGKVSNVRLIPPEELQRPRIDIVVTVSGIFRDLLSHQIRLLDKAVRLAAMADEPDSLNFIRKHVLQESQEKNLSMEQAANRIFSNAPGSYGANVNHLIENSGWQQEQELAETFINRKSFAVNAEGTWEECPEVLTSALRHVSLTFQNIDSYEIGISDIDHYYEYLGGISKTVELISKKKPSIMVGDINGYGEQQKICSLEKMVSLESRTKLLNPKWYESMLEHGYEGVREIESHLSNTYGWSATASAVKDWTYQQFNETYLQDPEMLERLKSLNLHATMSMTRRLLEANSRGFWNTDSRTIDELQELYADLETRMEGAGDEP
>NC_011059.1|WP_012506529.1|2178120_2179200_-|hypothetical-protein
MTTSLKVSFIWTRTFFQLFDNSCIQNSPYDFFVKPSAYKDKIKSLYTDESSLTLPWKLTGKNNLTNWFWKYYLNDIDPLSAPHETIANRCYPLYVPVRKSLTKQITVNWPSSGGSQNRGSFEGFFYRHGVAVVCTFSVHGCTSLKDAVEQGMSLRHDPLFSIPSTTSNVALTTVGDFCRNLLSEEIKVVTDWFDEEPFSLVTVVEGELNQEAQQGDSIQRALEALACWDKTWEKRELPVLSDHTISMKNNHAADIMYGHANSRVLWIPRLFIPGNNYALFWYSRNLLMATMQVKSFRDFLVRAADADRIKPGTRLGGYARQIGEIIRNMEKGLKTYRTLSAYRQIQDDKKLQAVLSAIS
>NC_011059.1|WP_150084403.1|2179330_2180665_-|hypothetical-protein
MKSFLLLCLMITLMAGVSQAGEKTDDLVMVNLQSTLTELNDFRPGYIYLVVANKSDTLLNVDRIEIAEYPDFIDVKKSSLDSVVVSREKKSLFYPDKKTINAGESEVYEVFITASDQVKPGKHLLLFNVFYNGWVSAKSENASIAEKSPRDALSPKVSKTGSLTLSHELDVKVFGENEILGALSNAVTFLMMPGFIMVIVFAMVWKISAPVSYQEKLPAWFKETKVADLQFWVIAITMSLIMARWLYPILTQLFTSGRRNYLYGYGFYDIVMMWGFSVLVGGFSGLIAGWVVSLYRKTKYSKAIHGDENPLELLQKAVVLGVNQSWLKKISVKKTGKSGYIVEQDAVDKDSLWVIPRIQVTWQAGADELNERFEQEIYDPKTKLAVLLETLAEGERQKQAGKGLEDIDWEKNTRFIERPLVVKKADFDSCHDTENIFSCDTSKQ
>NC_011059.1|WP_081429339.1|2180823_2181984_+|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MSWHWPNVRQEPENILQMPNSLQKVPPITLSTLTPLWTGGPQAGVVDRIHETGMIGSLRWWFEVLVRGVGGKVLSPNGEKCAILDLEKYKKLTTQQKNDPEKLKECGLCDASLIFGATNWKRKFRLEIEDHTSDIHLGNISVNTGSNKPAKWFFNNHARKGNLTLKIISLTRDRKLFDPAIIAGLVQFVSDWGGLGARNQMGFGIVRPEQALDARPLYEHLARIRKQATNQQLPSLDNMFFVQLKPQDQSRFDPEASFTLKHELRKKIQEEEKRTAELQSKKPDDTLSHFIMGTIKPEKLASKIFISRPFDKDETSTIRLWGWLPKQSSRYDSSWNRQSIRQLIYQHIEQNYHIEPDDWVELNHPDPKLKNSEDKFLKTLLRIDEG
>NC_011059.1|WP_012506532.1|2181988_2183068_+|hypothetical-protein
MIHDYAAFQYSQLQDLVEKLDRTSKNLDSRNKKIKKEAEKLIEKIASKTISIDPHTAYLWFAAQTDTEHNQKLTSAIREQWTKRTPHQHLDQQHGIRTIPDRDKLDLLPPFSFVLSFGFELRKPFLSKDDEAFHLLDNPVRKDKVFKTPVIAASGWKGALRYALWQLGYPEDSPSVDRLFGNPRECSQHEKLHAGRLQFFSTHFNSIENSIGYEIITPHDRETGTVNSRQGPILLETIRAAENNQADFTLAYIPLFYDSNIYKEIVTDFHILVRGIHAMMTVYGFGAKTSSGFGVAKDSVQKGSISLVLPDPVMKEINATQASEGSKATVMVKPKPFSTLTELSATEILPDLSFDKEGV
>NC_011059.1|WP_012506533.1|2183064_2186007_+|hypothetical-protein
MSERTIPAELKLSDSHRQAILYIELLGLIHDLGKLTDTFLRKEASNASNQGKKYEYRLFVDPRKLYTQAKTCKTVHNWRKNADNKACAFNDRPDLTDTLRSVKLTAWDGIEYCLAELAPFLAKTGFWKDNDKWMKELGKNMQPGTLIGFLHGIGHFEKESSGNNQTQAYINTWRSTPFGYDEEQLPTGSENNLTKTLQQLPLSQEEIQVVVQSAKEREQWLEKMENGLSKGLADTRRPINDVTLWDWGYLVASLAKAAAHYLFHHRWPESPEQLSFRTLRINLDRLQLYAESDRITDLLGKQNAIEEAYKKVRQYLEFDLALGNRIHHDETGDYYLIPGVLPGEDPKTALRIAIQNIFRKESLEDCLPRVHFGTSVQAGHLDKKNQKNATRDNNAVIETIRELLVNPRRDARAEAPVQNNNNLSLFEDEWKNGKSENAERCSVCGLRPVGYPVTGDLPEVEKNLEPWALEKKAKERNLCRLCLNRRGRRAKKWAEQWAGEAQHSKPPMTIWTDEVADDDGRIALFVGSFGLDHWLDGSALETIRLSKNTGKNPSPARLFRITETARSFWTTINSEVLQEKVNTESCRIVLTPANTDKLDLGKFHTYELQCNPHGMRISFVWDSERGYFLSVENLNGLMKRHGYKQNMLSMITTVKNTFENKTCTLYQPSSYGTASSRRATICIKTANLSTIHYKPVIPLLAEPSVCMSLIPADKAVDVSLKVFEKYQQEMSRVQDRLPMGIGLVFFPRRTPIRAVMEAGRAMLNMLQSKPEEEWKVNDLKRQTNTIDLTFNNSISFSYKTSYGKDSEIPDIWHLCCFDSEGKAKQLNELTTESHVKVYPGRFDFEFLDTSGRRFDIYYDEHGRRPRNTRPFYLTDIQRIADLWQYIRSLSKSQIYQVIELIETKRTEWHVAPGTKDERTEVFRKFVQSTLAGAEWPTTHSWHTISEQETLVQAGVDGVLTDVAELYISILKSPSTENQKA
>NC_011059.1|WP_012506534.1|2186003_2187002_+|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MTTPETTTNYKRLTYLFMCTDPVHVGTGGYRLGRVDNSIVREPGTNVPKIPGSSLHGAARTYAASVYNKPSCAGQGKQKRNGEQTSKQSGHCGQDTCQVCYTFGYSKNTGERSAYSGTVNVFDAHIILFPVHSLEGPVWITTTSRLKRMISTTPDDDLGDPEHEETITPLFELKENFLTLGWLVVNADPMKKVDNLPDTLPEQIKKHIVLVHENLFSHIVNSNLEIRTSVAINPERGAAEDGALFTYEAIPRTTILAADAVIDDYRKMFSLDNQSENKTENSGNDSVNPQEVLEKGLNLISWLGIGGMGTRGFGRMEMLGQLDSKQYGGENL
>NC_011059.1|WP_012506535.1|2186998_2187412_+|hypothetical-protein
MSEKTAILNLDYLAAKHAQQLVEDHSDIENTVTKALGVLQEHGVYACFLYLLAKEKEGNKGKNTAGHMIKLLQESKLVPEDNDLKKPIEILQYANEHISSAKLKKLLLIKDLLELMLIYSRYHANAMEPTNSREENT
>NC_011059.1|WP_012506536.1|2187408_2188272_+|hypothetical-protein
MTAWKVFHVIFRLNAPIHIGCGKSGNLQRTYPFVTGRVFWGALTARITRNNPEALQQHGHRAYRLIGEQIHREITYTYFYPAVKSSLDFEVRWPWEDGFAARHIRTYASTALTYPEQQAEEASLHEIEYLSPVTCDTVEQVYLRGYVFVKESSTLEWQKALGQLQFGGERCYGWGDVETILNDEQTATPELFDGHAKFMDDDLPVIRLSDSSANHLLAHTEANCCQAHGQTEPLVGREWRSDNDVNRYAGQHIAFNAFCFRPGSTVASLPCQFQIGKYGIWKTKSPH
>NC_011059.1|WP_012506537.1|2190459_2190900_+|DUF937-domain-containing-protein
MTFDDLLAIGASAIRGNSDSATTGLDSGALATALGSLFAGNEGKPDFSWLLEKMKESNLDDIAASWLGNGENKAIPAELVNNILGSDMVANFASQLGLSESSAKQALADALPKMVDKGSSGGSLLQNIFDNAGGLDGLIGMARKFF
>NC_011059.1|WP_012506538.1|2191009_2191960_-|WD40-repeat-domain-containing-protein
MGFLSKLFGKKEVELKRPQVREDENLIRTLEGHQDRVLGVRFSPDGKKLVSGSFDEKVMLWDVATGAPLHTMSGHDTWVECVDYSPNGDRVASGSTDSTVRIWDPAPGKCVHLCKGHDTAVRMVAFSPDGKTLASCSRDTLIKLWDVETGRELKTLSGHISYIECVAWSNDGKRLVSCGEETVIRIWDVASGKNTASYATGDSLSHTACFSPDDSLIALCGRDAKVKILDAASGEIKHTLEGHDDGARSVCFSPDGTKAASVANDEKVILWDVVTGRLIHTYRGHVLEVQSVDISPDGTTIVSSSDDRKIKLWKLV

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Crispr_ID: NC_011059_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_6

2188672-2188786

TypeIII

Consensus_repeat	Method
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CRISPRCasFinder

1 spacers

cmr3gr5,cmr5gr11,cmr4gr7,cas10,cmr6gr7,cmr1gr7,cas6,cas1

The CRISPR arrays of NC_011059_6

>merge|NC_011059|6|2188672-2188786|CRISPRCasFinder
TTCCCCATCCCCCTTACTCAATCGGGTCTACCTACACCAAGTATGTCTTTAGATAGAATTAAAGATGCTATTTGGTTGTCTCAATCCCCCTTACTCAATCGGGTCTGCCTACACT

>NC_011059|6|6|2188672-2188786|CRISPRCasFinder
TTCCCCATCCCCCTTACTCAATCGGGTCTACCTACAC	CAAGTATGTCTTTAGATAGAATTAAAGATGCTATTTGGTT
GTCTCAATCCCCCTTACTCAATCGGGTCTGCCTACACT

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_041702315.1\|2195798_2196797_-\|UbiA-family-prenyltransferase	unknown	unknown	gnl\|CDD\|171463
NC_011059.1\|WP_012506545.1\|2199256_2200462_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	unknown	unknown	gnl\|CDD\|132443
NC_011059.1\|WP_012506539.1\|2192089_2193241_-\|glycosyltransferase	unknown	unknown	gnl\|CDD\|213815
NC_011059.1\|WP_012506544.1\|2198661_2199273_-\|iron-sulfur-cluster-assembly-scaffold-protein	unknown	unknown	gnl\|CDD\|273921
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	unknown	unknown	gnl\|CDD\|226276
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|187890
NC_011059.1\|WP_150084403.1\|2179330_2180665_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506529.1\|2178120_2179200_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	cas1	pfam01867_cas1_CAS-I:CAS-II:CAS-III	gnl\|CDD\|376633
NC_011059.1\|WP_012506541.1\|2194245_2194983_-\|UDP-2,3-diacylglucosamine-diphosphatase	unknown	unknown	gnl\|CDD\|277343
NC_011059.1\|WP_012506536.1\|2187408_2188272_+\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	unknown
NC_011059.1\|WP_012506535.1\|2186998_2187412_+\|hypothetical-protein	cmr5gr11	mkCas0060_cmr5gr11_CAS-III-C	unknown
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|238121
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	gnl\|CDD\|377130
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	cas10	cd09701_cas10_CAS-III-C	gnl\|CDD\|187832
NC_011059.1\|WP_012506543.1\|2196928_2198254_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	unknown	unknown	gnl\|CDD\|237679
NC_011059.1\|WP_012506540.1\|2193342_2194227_-\|ATP-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|234781
NC_011059.1\|WP_114616652.1\|2200514_2201444_-\|cysteine-synthase-A	unknown	unknown	gnl\|CDD\|273463
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	cd09657_cmr1gr7_CAS-III-C	gnl\|CDD\|273859

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_041702315.1\|2195798_2196797_-\|UbiA-family-prenyltransferase	gnl\|CDD\|171463	PRK12392, PRK12392, bacteriochlorophyll c synthase; Provisional.	0
NC_011059.1\|WP_012506539.1\|2192089_2193241_-\|glycosyltransferase	gnl\|CDD\|213815	TIGR03469, HpnB, hopene-associated glycosyltransferase HpnB. This family of genes include a glycosyl transferase, group 2 domain (pfam00535) which are responsible, generally for the transfer of nucleotide-diphosphate sugars to substrates such as polysaccharides and lipids. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. Indeed, the members of this family appear to never be found in a genome lacking squalene-hopene cyclase (SHC), although not all genomes encoding SHC have this glycosyl transferase. In the organism Zymomonas mobilis the linkage of this gene to hopanoid biosynthesis has been noted and the gene named HpnB. Hopanoids are known to feature polar glycosyl head groups in many organisms.	1.47558e-53
NC_011059.1\|WP_012506544.1\|2198661_2199273_-\|iron-sulfur-cluster-assembly-scaffold-protein	gnl\|CDD\|273921	TIGR02000, Nitrogen_fixation_protein_NifU, Fe-S cluster assembly protein NifU. Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other, Central intermediary metabolism, Nitrogen fixation].	6.83261e-51
NC_011059.1\|WP_012506545.1\|2199256_2200462_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	gnl\|CDD\|132443	TIGR03402, Cysteine_desulfurase_NifS, cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.	0
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|187890	cd09760, Cas6_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.	2.53526e-09
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	gnl\|CDD\|376633	pfam01867, Cas_Cas1, CRISPR associated protein Cas1. Clustered regularly interspaced short palindromic repeats (CRISPRs) are a family of DNA direct repeats found in many prokaryotic genomes. This family of proteins corresponds to Cas1, a CRISPR-associated protein. Cas1 may be involved in linking DNA segments to CRISPR.	4.69908e-15
NC_011059.1\|WP_012506540.1\|2193342_2194227_-\|ATP-phosphoribosyltransferase	gnl\|CDD\|234781	PRK00489, hisG, ATP phosphoribosyltransferase; Reviewed.	3.37222e-144
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	gnl\|CDD\|226276	COG3753, COG3753, Uncharacterized protein conserved in bacteria [Function unknown].	4.56159e-11
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	gnl\|CDD\|238121	cd00200, WD40, WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.	1.16438e-83
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	3.81731e-10
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.45919e-44
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. 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 model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	4.40313e-18
NC_011059.1\|WP_012506543.1\|2196928_2198254_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	gnl\|CDD\|237679	PRK14340, PRK14340, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional.	0
NC_011059.1\|WP_012506541.1\|2194245_2194983_-\|UDP-2,3-diacylglucosamine-diphosphatase	gnl\|CDD\|277343	cd07398, MPP_YbbF-LpxH, Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain. YbbF/LpxH is an Escherichia coli UDP-2,3-diacylglucosamine hydrolase thought to catalyze the fourth step of lipid A biosynthesis, in which a precursor UDP-2,3-diacylglucosamine is hydrolyzed to yield 2,3-diacylglucosamine 1-phosphate and UMP. YbbF belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	3.30797e-45
NC_011059.1\|WP_114616652.1\|2200514_2201444_-\|cysteine-synthase-A	gnl\|CDD\|273463	TIGR01136, Cysteine_synthase, cysteine synthase. This model discriminates cysteine synthases (EC 2.5.1.47) (both CysK and CysM) from cystathionine beta-synthase, a protein found primarily in eukaryotes and carrying a C-terminal CBS domain lacking from this protein. Bacterial proteins lacking the CBS domain but otherwise showing resemblamnce to cystathionine beta-synthases and considerable phylogenetic distance from known cysteine synthases were excluded from the seed and score below the trusted cutoff. [Amino acid biosynthesis, Serine family].	8.53976e-174
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	gnl\|CDD\|187832	cd09701, 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, inactivated palm domain and Zn-ribbon; signature gene for type III.	9.22996e-137

>NC_011059.1|WP_012506536.1|2187408_2188272_+|hypothetical-protein
MTAWKVFHVIFRLNAPIHIGCGKSGNLQRTYPFVTGRVFWGALTARITRNNPEALQQHGHRAYRLIGEQIHREITYTYFYPAVKSSLDFEVRWPWEDGFAARHIRTYASTALTYPEQQAEEASLHEIEYLSPVTCDTVEQVYLRGYVFVKESSTLEWQKALGQLQFGGERCYGWGDVETILNDEQTATPELFDGHAKFMDDDLPVIRLSDSSANHLLAHTEANCCQAHGQTEPLVGREWRSDNDVNRYAGQHIAFNAFCFRPGSTVASLPCQFQIGKYGIWKTKSPH
>NC_011059.1|WP_012506535.1|2186998_2187412_+|hypothetical-protein
MSEKTAILNLDYLAAKHAQQLVEDHSDIENTVTKALGVLQEHGVYACFLYLLAKEKEGNKGKNTAGHMIKLLQESKLVPEDNDLKKPIEILQYANEHISSAKLKKLLLIKDLLELMLIYSRYHANAMEPTNSREENT
>NC_011059.1|WP_012506534.1|2186003_2187002_+|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MTTPETTTNYKRLTYLFMCTDPVHVGTGGYRLGRVDNSIVREPGTNVPKIPGSSLHGAARTYAASVYNKPSCAGQGKQKRNGEQTSKQSGHCGQDTCQVCYTFGYSKNTGERSAYSGTVNVFDAHIILFPVHSLEGPVWITTTSRLKRMISTTPDDDLGDPEHEETITPLFELKENFLTLGWLVVNADPMKKVDNLPDTLPEQIKKHIVLVHENLFSHIVNSNLEIRTSVAINPERGAAEDGALFTYEAIPRTTILAADAVIDDYRKMFSLDNQSENKTENSGNDSVNPQEVLEKGLNLISWLGIGGMGTRGFGRMEMLGQLDSKQYGGENL
>NC_011059.1|WP_012506533.1|2183064_2186007_+|hypothetical-protein
MSERTIPAELKLSDSHRQAILYIELLGLIHDLGKLTDTFLRKEASNASNQGKKYEYRLFVDPRKLYTQAKTCKTVHNWRKNADNKACAFNDRPDLTDTLRSVKLTAWDGIEYCLAELAPFLAKTGFWKDNDKWMKELGKNMQPGTLIGFLHGIGHFEKESSGNNQTQAYINTWRSTPFGYDEEQLPTGSENNLTKTLQQLPLSQEEIQVVVQSAKEREQWLEKMENGLSKGLADTRRPINDVTLWDWGYLVASLAKAAAHYLFHHRWPESPEQLSFRTLRINLDRLQLYAESDRITDLLGKQNAIEEAYKKVRQYLEFDLALGNRIHHDETGDYYLIPGVLPGEDPKTALRIAIQNIFRKESLEDCLPRVHFGTSVQAGHLDKKNQKNATRDNNAVIETIRELLVNPRRDARAEAPVQNNNNLSLFEDEWKNGKSENAERCSVCGLRPVGYPVTGDLPEVEKNLEPWALEKKAKERNLCRLCLNRRGRRAKKWAEQWAGEAQHSKPPMTIWTDEVADDDGRIALFVGSFGLDHWLDGSALETIRLSKNTGKNPSPARLFRITETARSFWTTINSEVLQEKVNTESCRIVLTPANTDKLDLGKFHTYELQCNPHGMRISFVWDSERGYFLSVENLNGLMKRHGYKQNMLSMITTVKNTFENKTCTLYQPSSYGTASSRRATICIKTANLSTIHYKPVIPLLAEPSVCMSLIPADKAVDVSLKVFEKYQQEMSRVQDRLPMGIGLVFFPRRTPIRAVMEAGRAMLNMLQSKPEEEWKVNDLKRQTNTIDLTFNNSISFSYKTSYGKDSEIPDIWHLCCFDSEGKAKQLNELTTESHVKVYPGRFDFEFLDTSGRRFDIYYDEHGRRPRNTRPFYLTDIQRIADLWQYIRSLSKSQIYQVIELIETKRTEWHVAPGTKDERTEVFRKFVQSTLAGAEWPTTHSWHTISEQETLVQAGVDGVLTDVAELYISILKSPSTENQKA
>NC_011059.1|WP_012506532.1|2181988_2183068_+|hypothetical-protein
MIHDYAAFQYSQLQDLVEKLDRTSKNLDSRNKKIKKEAEKLIEKIASKTISIDPHTAYLWFAAQTDTEHNQKLTSAIREQWTKRTPHQHLDQQHGIRTIPDRDKLDLLPPFSFVLSFGFELRKPFLSKDDEAFHLLDNPVRKDKVFKTPVIAASGWKGALRYALWQLGYPEDSPSVDRLFGNPRECSQHEKLHAGRLQFFSTHFNSIENSIGYEIITPHDRETGTVNSRQGPILLETIRAAENNQADFTLAYIPLFYDSNIYKEIVTDFHILVRGIHAMMTVYGFGAKTSSGFGVAKDSVQKGSISLVLPDPVMKEINATQASEGSKATVMVKPKPFSTLTELSATEILPDLSFDKEGV
>NC_011059.1|WP_081429339.1|2180823_2181984_+|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MSWHWPNVRQEPENILQMPNSLQKVPPITLSTLTPLWTGGPQAGVVDRIHETGMIGSLRWWFEVLVRGVGGKVLSPNGEKCAILDLEKYKKLTTQQKNDPEKLKECGLCDASLIFGATNWKRKFRLEIEDHTSDIHLGNISVNTGSNKPAKWFFNNHARKGNLTLKIISLTRDRKLFDPAIIAGLVQFVSDWGGLGARNQMGFGIVRPEQALDARPLYEHLARIRKQATNQQLPSLDNMFFVQLKPQDQSRFDPEASFTLKHELRKKIQEEEKRTAELQSKKPDDTLSHFIMGTIKPEKLASKIFISRPFDKDETSTIRLWGWLPKQSSRYDSSWNRQSIRQLIYQHIEQNYHIEPDDWVELNHPDPKLKNSEDKFLKTLLRIDEG
>NC_011059.1|WP_150084403.1|2179330_2180665_-|hypothetical-protein
MKSFLLLCLMITLMAGVSQAGEKTDDLVMVNLQSTLTELNDFRPGYIYLVVANKSDTLLNVDRIEIAEYPDFIDVKKSSLDSVVVSREKKSLFYPDKKTINAGESEVYEVFITASDQVKPGKHLLLFNVFYNGWVSAKSENASIAEKSPRDALSPKVSKTGSLTLSHELDVKVFGENEILGALSNAVTFLMMPGFIMVIVFAMVWKISAPVSYQEKLPAWFKETKVADLQFWVIAITMSLIMARWLYPILTQLFTSGRRNYLYGYGFYDIVMMWGFSVLVGGFSGLIAGWVVSLYRKTKYSKAIHGDENPLELLQKAVVLGVNQSWLKKISVKKTGKSGYIVEQDAVDKDSLWVIPRIQVTWQAGADELNERFEQEIYDPKTKLAVLLETLAEGERQKQAGKGLEDIDWEKNTRFIERPLVVKKADFDSCHDTENIFSCDTSKQ
>NC_011059.1|WP_012506529.1|2178120_2179200_-|hypothetical-protein
MTTSLKVSFIWTRTFFQLFDNSCIQNSPYDFFVKPSAYKDKIKSLYTDESSLTLPWKLTGKNNLTNWFWKYYLNDIDPLSAPHETIANRCYPLYVPVRKSLTKQITVNWPSSGGSQNRGSFEGFFYRHGVAVVCTFSVHGCTSLKDAVEQGMSLRHDPLFSIPSTTSNVALTTVGDFCRNLLSEEIKVVTDWFDEEPFSLVTVVEGELNQEAQQGDSIQRALEALACWDKTWEKRELPVLSDHTISMKNNHAADIMYGHANSRVLWIPRLFIPGNNYALFWYSRNLLMATMQVKSFRDFLVRAADADRIKPGTRLGGYARQIGEIIRNMEKGLKTYRTLSAYRQIQDDKKLQAVLSAIS
>NC_011059.1|WP_012506528.1|2176062_2177061_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MYSSFTSLSIARFRFTIEPTEEISLPEYKGSAFRGGFGHAFKRATCITRDRYCEPCILKFSCTYFKVFESKVSRETAERLRLGGDAPHPFIIEPPLTRQGYFQPGDRLSFSLVLIGTAIGQLPFFVYAFMILGESFGIGKGRGRFRLVSVEDENGKQLYDNGNLAGGFVIRSADEIMKTDVSSDDDRMKLRFETPLRMKTAFGRDRKALVTGMHEPADFRVLLKSLYHRAFVLGQLYGEGVDEAEYDSRNLPLVDGTVAVENADIFWYDWERFSQRQERRMKLGGVMGEVTFSGKVAEYLPLFRLGEYLHIGKGTGFGLGKYRIAKESGKTP
>NC_011059.1|WP_012506527.1|2175841_2176066_-|CRISPR-associated-protein-Cas1
MTIEDAAFLRTLYIQEQGTVLRIENERFRVTVGDDDDEDIVNIPSIKVGQIVIFGACMVTPAAMRFCLSVGRPD
>NC_011059.1|WP_012506537.1|2190459_2190900_+|DUF937-domain-containing-protein
MTFDDLLAIGASAIRGNSDSATTGLDSGALATALGSLFAGNEGKPDFSWLLEKMKESNLDDIAASWLGNGENKAIPAELVNNILGSDMVANFASQLGLSESSAKQALADALPKMVDKGSSGGSLLQNIFDNAGGLDGLIGMARKFF
>NC_011059.1|WP_012506538.1|2191009_2191960_-|WD40-repeat-domain-containing-protein
MGFLSKLFGKKEVELKRPQVREDENLIRTLEGHQDRVLGVRFSPDGKKLVSGSFDEKVMLWDVATGAPLHTMSGHDTWVECVDYSPNGDRVASGSTDSTVRIWDPAPGKCVHLCKGHDTAVRMVAFSPDGKTLASCSRDTLIKLWDVETGRELKTLSGHISYIECVAWSNDGKRLVSCGEETVIRIWDVASGKNTASYATGDSLSHTACFSPDDSLIALCGRDAKVKILDAASGEIKHTLEGHDDGARSVCFSPDGTKAASVANDEKVILWDVVTGRLIHTYRGHVLEVQSVDISPDGTTIVSSSDDRKIKLWKLV
>NC_011059.1|WP_012506539.1|2192089_2193241_-|glycosyltransferase
MMIYQLSILFCLLVFFVIVLLNLKDFKKLPSRATSVSPLVSVLVPARNEDNTIARCIESLLIQDYGNFEIIVLNDGSTDRTAEVLQSIVSSVQGAALRVIDGTTLPDGWHGKAWACQQLGAEARGELLLFTDADTVHAPDSVRRAVAALDESRADMLSLTPYQETKSFWERLIIPVMYVIVFCYLPLRMVREHASEAFCFANGQFIMMQRKMYDLINGHSAVRRNIVEDVWLCKAVKRAGGSVAVYNGTDTVRCRMYRTLSEIWQGFSKNLFAGLGYNTIGLFSLIVMTALFYIVPYIFVFRALLLQDYSFFVFWLPCLQIALAMLMRLFIAVRFRQPLSGALLHGLSQLMLIALAANSFYLVRFGGGARWKGRQYDFSDHQS
>NC_011059.1|WP_012506540.1|2193342_2194227_-|ATP-phosphoribosyltransferase
MSASKQLLKLGLPKGSLQDSTLDLFAKAGFHFSVKSRSYFPSIDDDELEAILIRAQEMAHYVELGAFDVGLTGKDWIIETDADVVEVSDLVYSKASMRPVRWVLAVPESSSIQTVKDLEGKHIATEVVNITKKYLAENNVNAHVEFSWGATEVKPPELADAIVEVTETGSSLRANKLRIVEVLLESNTKLIANRNSWNDPWKREKIENMAMLLQGAIHAQGKVGLKMNAPKDALDKIMAFIPGLRTPTVSNLADDKWVALEVIVDEQTVRSVIPDLKRAGAEGIFEYHINKLID
>NC_011059.1|WP_012506541.1|2194245_2194983_-|UDP-2,3-diacylglucosamine-diphosphatase
MSKSFFISDIHLGLQDEGAEKEKIRHLEKLFTMVASDGAALYMVGDILDYWMEFRHVIPRYFSSFLCLLQELSRHDVRLYWFSGNHDFTLGRFFTDEYGVRCLYGMHEMLIDERRFVIGHGDGLDRSDIGYRLFVAMIRNRFNQRLLSSLQPDLAIAIMRRFSRMSRDRNPGENGYESDFLQQYADALVRQKDFDYFVCGHSHALKKKLLANARSHYINLGTWIHGSYPYAIFDNGVFSLQELSI
>NC_011059.1|WP_041702315.1|2195798_2196797_-|UbiA-family-prenyltransferase
MTATHRLGFTDKLRAHLELLDPVTWISVFPCLAGGVMASGAMQGTFHDYLLLLALFLMFGPLGTGFSQTINDYFDLELDRVNEPTRPIPSGRLSEKEALINSIVVFVLALGIGIVLGIHVGGTRGIFITSAIAVGLFVAYIYSAPPLKLKKNILTSAPAVGLSYSLITFLSANALFSDIRPEAVWLAVLNFFMAIALIIMNDFKSAKGDEESGLKSLTVMIGAKNTFLVAFAIIDMVFAVFAWLTFSWGFTILMYVILVSLVANITIQIMLYRDPKGGLSFMQHAVDDGFGNAIGKSDVQEHNSFLRYQVANNLLFLINLLVAAGMVGARYM
>NC_011059.1|WP_012506543.1|2196928_2198254_-|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB
MTKKVSIRTFGCQMNQADTEIISSLLTAEGYCLVAEEDDADLVMLNTCAVRENAVEKIMHHLDSLKGLRRRRRGLVVGVIGCVPQYYREEMFQKSGVIDFIAGPDSYRKLPGLIRNAFQGIRGAELFLTQSETYGDIEPMRSGSISAFIPVMRGCNNMCAFCVVPFTRGRERSRSLQSVLDEVRRLEGQGYRELTLLGQNVNSYRDDEAGADFALLLDEVSKAAGEMRVRFTTSHPKDISEDLVNVVAQRENVCNAIHLPVQSGSSRMLEVMHRGHTRREYLDKIAMIRSAVPGVALSTDLIAGFCGETEEDHLQTLSLMEEVRFDYAYMFYYSVRPGTYAARHLTDDVALEEKKRRLQEIIDLQSGISGEIFGNDVGSVQEVLAESESRRSSDMLMGRSDTNRVVVFDRQHYQPGDLVRVVIESSTQATLIGRCQDPGEG
>NC_011059.1|WP_012506544.1|2198661_2199273_-|iron-sulfur-cluster-assembly-scaffold-protein
MLQQNDWVYTETLKEHFMNPKNILQGEDTDAFDGVGMEGNLSCGDQMMVVIKVDRDKEIITDCQWKTYGCASAIASTSVLSEMVKGMTLDQAFDVSPKDVTKELGGLPENKIHCSVLGDKALRAAINNYFERNGMADRMRKEQAKIICQCMNVTDAEIEEAVLEGARSFYELQEHTKIGTVCGQCKESAEGLIEQYCHLHFDH
>NC_011059.1|WP_012506545.1|2199256_2200462_-|aminotransferase-class-V-fold-PLP-dependent-enzyme
METRRVYLDHNATTPLHPEVKKEMIEAMEMFGNPSSMHAFGREAHANIEHARQSVAGFIGAHEDELVFVGSGSEANNTVLSLFACASNLCIPGFKARQTIITSRIEHPCVLETSQCLAHRGTTVKLLDVDRYGRIDIDQLKEYLSDDVGLVSVMTANNEIGTLQDISEIGRLAHENGSLMHTDAVQAFGKMPLDVDELGVDFLTMSAHKIYGPKGIGALYVRKGTPYCPFIRGGHQEKGRRAGTENTLGIMGLAKAVEMRALEMEDEARRFAAMKEVLVKGIEERIDNALFNGHPELSMPNTVNVSFPGAEGEAILLYLDLAGIAVSTGSACASGSLDPSHVLLATGSSAERAHGSIRISMGRETTMEEIEYVLDVLPGVISRIRSMSTAYIKGEEHVAAK
>NC_011059.1|WP_114616652.1|2200514_2201444_-|cysteine-synthase-A
MMNVYESITETVGRTPLVRIRRMADHSYADVYAKLESFNPLSSVKDRVGVAMIEDAERNGLIGPETTIIEPTSGNTGIALAFSCASRGYRLILTMPDTMSVERRRLLKILGAELVLTEGAAGMKGAIAEAERLVDSIPHSLMLQQFNNPANPETHRRTTAREIWDDTDGQVDIFIAGVGTGGTITGVGSVLRELKPGVHIVAVEPDDSPVISGGEPGPHKIQGIGAGFVPGNLDPSVIDEIITVSNQDAAETARKLARKEGILCGISSGAAMWAAMSVAARPAMEGKNIVVLLPDTGERYLSTWLFADE

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Crispr_ID: NC_011059_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011059_7

2189181-2189643

TypeIII

Consensus_repeat	Method
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CRISPRCasFinder
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CRT
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	PILER-CR

6 spacers

cmr3gr5,cmr5gr11,cmr4gr7,cas10,cmr6gr7,cmr1gr7,cas6,cas1

The CRISPR arrays of NC_011059_7

>merge|NC_011059|7|2189181-2189643|CRISPRCasFinder,CRT,PILER-CR
TCCCCCGTCCCCTTTATCCAAGCGGGTCTTCATCTACGTTAGGAAAAGCTGTTAAGCTCATCAAAAATGACGGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTACAGAGCTTGGTTGCTTTCTGAGCGTCTCAAGAAGGGGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTACCCGCATTGGCGAACGGGGCTCTGGAGGCGGCGGCGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTACACTATACCCAACAGGCATACTTCCTCCTTAAGTGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTACTATGCGGTTATCAGTGGAGGTGTTCCGATACCGGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTACTCGTTACAGATAGTTTCCCAAGCGCGTATACAAGGTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC

>NC_011059|7|7|2189181-2189643|CRISPRCasFinder
TCCCCCGTCCCCTTTATCCAAGCGGGTCTTCATCTAC	GTTAGGAAAAGCTGTTAAGCTCATCAAAAATGACG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	AGAGCTTGGTTGCTTTCTGAGCGTCTCAAGAAGGG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CCGCATTGGCGAACGGGGCTCTGGAGGCGGCGGC
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	ACTATACCCAACAGGCATACTTCCTCCTTAAGT
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TATGCGGTTATCAGTGGAGGTGTTCCGATACCG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TCGTTACAGATAGTTTCCCAAGCGCGTATACAAG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC

>NC_011059|7|4|2189181-2189643|CRT
TCCCCCGTCCCCTTTATCCAAGCGGGTCTTCATCTAC	GTTAGGAAAAGCTGTTAAGCTCATCAAAAATGACG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	AGAGCTTGGTTGCTTTCTGAGCGTCTCAAGAAGGG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CCGCATTGGCGAACGGGGCTCTGGAGGCGGCGGC
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	ACTATACCCAACAGGCATACTTCCTCCTTAAGT
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TATGCGGTTATCAGTGGAGGTGTTCCGATACCG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TCGTTACAGATAGTTTCCCAAGCGCGTATACAAG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC

>NC_011059|7|5|2189253-2189643|PILER-CR
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	AGAGCTTGGTTGCTTTCTGAGCGTCTCAAGAAGGG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	CCGCATTGGCGAACGGGGCTCTGGAGGCGGCGGC
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	ACTATACCCAACAGGCATACTTCCTCCTTAAGT
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TATGCGGTTATCAGTGGAGGTGTTCCGATACCG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC	TCGTTACAGATAGTTTCCCAAGCGCGTATACAAG
GTCTCAATCCCCTTTATCCAAGCGGGTCTTCATCTAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011059.1\|WP_041702315.1\|2195798_2196797_-\|UbiA-family-prenyltransferase	unknown	unknown	gnl\|CDD\|171463
NC_011059.1\|WP_012506545.1\|2199256_2200462_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	unknown	unknown	gnl\|CDD\|132443
NC_011059.1\|WP_012506539.1\|2192089_2193241_-\|glycosyltransferase	unknown	unknown	gnl\|CDD\|213815
NC_011059.1\|WP_012506544.1\|2198661_2199273_-\|iron-sulfur-cluster-assembly-scaffold-protein	unknown	unknown	gnl\|CDD\|273921
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	unknown	unknown	gnl\|CDD\|226276
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	mkCas0066_cas6_CAS-I:CAS-III	gnl\|CDD\|187890
NC_011059.1\|WP_150084403.1\|2179330_2180665_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506529.1\|2178120_2179200_-\|hypothetical-protein	unknown	unknown	unknown
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	cas1	pfam01867_cas1_CAS-I:CAS-II:CAS-III	gnl\|CDD\|376633
NC_011059.1\|WP_012506541.1\|2194245_2194983_-\|UDP-2,3-diacylglucosamine-diphosphatase	unknown	unknown	gnl\|CDD\|277343
NC_011059.1\|WP_012506536.1\|2187408_2188272_+\|hypothetical-protein	cmr3gr5	mkCas0067_cmr3gr5_CAS-III-C	unknown
NC_011059.1\|WP_012506535.1\|2186998_2187412_+\|hypothetical-protein	cmr5gr11	mkCas0060_cmr5gr11_CAS-III-C	unknown
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|238121
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	cmr6gr7	mkCas0142_cmr6gr7_CAS-III-C	gnl\|CDD\|377130
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	cas10	cd09701_cas10_CAS-III-C	gnl\|CDD\|187832
NC_011059.1\|WP_012506543.1\|2196928_2198254_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	unknown	unknown	gnl\|CDD\|237679
NC_011059.1\|WP_012506540.1\|2193342_2194227_-\|ATP-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|234781
NC_011059.1\|WP_114616652.1\|2200514_2201444_-\|cysteine-synthase-A	unknown	unknown	gnl\|CDD\|273463
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	cd09657_cmr1gr7_CAS-III-C	gnl\|CDD\|273859

Protein	Function_ID	Function_description	E-value
NC_011059.1\|WP_041702315.1\|2195798_2196797_-\|UbiA-family-prenyltransferase	gnl\|CDD\|171463	PRK12392, PRK12392, bacteriochlorophyll c synthase; Provisional.	0
NC_011059.1\|WP_012506539.1\|2192089_2193241_-\|glycosyltransferase	gnl\|CDD\|213815	TIGR03469, HpnB, hopene-associated glycosyltransferase HpnB. This family of genes include a glycosyl transferase, group 2 domain (pfam00535) which are responsible, generally for the transfer of nucleotide-diphosphate sugars to substrates such as polysaccharides and lipids. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. Indeed, the members of this family appear to never be found in a genome lacking squalene-hopene cyclase (SHC), although not all genomes encoding SHC have this glycosyl transferase. In the organism Zymomonas mobilis the linkage of this gene to hopanoid biosynthesis has been noted and the gene named HpnB. Hopanoids are known to feature polar glycosyl head groups in many organisms.	1.47558e-53
NC_011059.1\|WP_012506544.1\|2198661_2199273_-\|iron-sulfur-cluster-assembly-scaffold-protein	gnl\|CDD\|273921	TIGR02000, Nitrogen_fixation_protein_NifU, Fe-S cluster assembly protein NifU. Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other, Central intermediary metabolism, Nitrogen fixation].	6.83261e-51
NC_011059.1\|WP_012506545.1\|2199256_2200462_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	gnl\|CDD\|132443	TIGR03402, Cysteine_desulfurase_NifS, cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.	0
NC_011059.1\|WP_012506528.1\|2176062_2177061_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|187890	cd09760, Cas6_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.	2.53526e-09
NC_011059.1\|WP_012506527.1\|2175841_2176066_-\|CRISPR-associated-protein-Cas1	gnl\|CDD\|376633	pfam01867, Cas_Cas1, CRISPR associated protein Cas1. Clustered regularly interspaced short palindromic repeats (CRISPRs) are a family of DNA direct repeats found in many prokaryotic genomes. This family of proteins corresponds to Cas1, a CRISPR-associated protein. Cas1 may be involved in linking DNA segments to CRISPR.	4.69908e-15
NC_011059.1\|WP_012506540.1\|2193342_2194227_-\|ATP-phosphoribosyltransferase	gnl\|CDD\|234781	PRK00489, hisG, ATP phosphoribosyltransferase; Reviewed.	3.37222e-144
NC_011059.1\|WP_012506537.1\|2190459_2190900_+\|DUF937-domain-containing-protein	gnl\|CDD\|226276	COG3753, COG3753, Uncharacterized protein conserved in bacteria [Function unknown].	4.56159e-11
NC_011059.1\|WP_012506538.1\|2191009_2191960_-\|WD40-repeat-domain-containing-protein	gnl\|CDD\|238121	cd00200, WD40, WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.	1.16438e-83
NC_011059.1\|WP_012506532.1\|2181988_2183068_+\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	3.81731e-10
NC_011059.1\|WP_012506534.1\|2186003_2187002_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.45919e-44
NC_011059.1\|WP_081429339.1\|2180823_2181984_+\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. 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 model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	4.40313e-18
NC_011059.1\|WP_012506543.1\|2196928_2198254_-\|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB	gnl\|CDD\|237679	PRK14340, PRK14340, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional.	0
NC_011059.1\|WP_012506541.1\|2194245_2194983_-\|UDP-2,3-diacylglucosamine-diphosphatase	gnl\|CDD\|277343	cd07398, MPP_YbbF-LpxH, Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain. YbbF/LpxH is an Escherichia coli UDP-2,3-diacylglucosamine hydrolase thought to catalyze the fourth step of lipid A biosynthesis, in which a precursor UDP-2,3-diacylglucosamine is hydrolyzed to yield 2,3-diacylglucosamine 1-phosphate and UMP. YbbF belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	3.30797e-45
NC_011059.1\|WP_114616652.1\|2200514_2201444_-\|cysteine-synthase-A	gnl\|CDD\|273463	TIGR01136, Cysteine_synthase, cysteine synthase. This model discriminates cysteine synthases (EC 2.5.1.47) (both CysK and CysM) from cystathionine beta-synthase, a protein found primarily in eukaryotes and carrying a C-terminal CBS domain lacking from this protein. Bacterial proteins lacking the CBS domain but otherwise showing resemblamnce to cystathionine beta-synthases and considerable phylogenetic distance from known cysteine synthases were excluded from the seed and score below the trusted cutoff. [Amino acid biosynthesis, Serine family].	8.53976e-174
NC_011059.1\|WP_012506533.1\|2183064_2186007_+\|hypothetical-protein	gnl\|CDD\|187832	cd09701, 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, inactivated palm domain and Zn-ribbon; signature gene for type III.	9.22996e-137

>NC_011059.1|WP_012506536.1|2187408_2188272_+|hypothetical-protein
MTAWKVFHVIFRLNAPIHIGCGKSGNLQRTYPFVTGRVFWGALTARITRNNPEALQQHGHRAYRLIGEQIHREITYTYFYPAVKSSLDFEVRWPWEDGFAARHIRTYASTALTYPEQQAEEASLHEIEYLSPVTCDTVEQVYLRGYVFVKESSTLEWQKALGQLQFGGERCYGWGDVETILNDEQTATPELFDGHAKFMDDDLPVIRLSDSSANHLLAHTEANCCQAHGQTEPLVGREWRSDNDVNRYAGQHIAFNAFCFRPGSTVASLPCQFQIGKYGIWKTKSPH
>NC_011059.1|WP_012506535.1|2186998_2187412_+|hypothetical-protein
MSEKTAILNLDYLAAKHAQQLVEDHSDIENTVTKALGVLQEHGVYACFLYLLAKEKEGNKGKNTAGHMIKLLQESKLVPEDNDLKKPIEILQYANEHISSAKLKKLLLIKDLLELMLIYSRYHANAMEPTNSREENT
>NC_011059.1|WP_012506534.1|2186003_2187002_+|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MTTPETTTNYKRLTYLFMCTDPVHVGTGGYRLGRVDNSIVREPGTNVPKIPGSSLHGAARTYAASVYNKPSCAGQGKQKRNGEQTSKQSGHCGQDTCQVCYTFGYSKNTGERSAYSGTVNVFDAHIILFPVHSLEGPVWITTTSRLKRMISTTPDDDLGDPEHEETITPLFELKENFLTLGWLVVNADPMKKVDNLPDTLPEQIKKHIVLVHENLFSHIVNSNLEIRTSVAINPERGAAEDGALFTYEAIPRTTILAADAVIDDYRKMFSLDNQSENKTENSGNDSVNPQEVLEKGLNLISWLGIGGMGTRGFGRMEMLGQLDSKQYGGENL
>NC_011059.1|WP_012506533.1|2183064_2186007_+|hypothetical-protein
MSERTIPAELKLSDSHRQAILYIELLGLIHDLGKLTDTFLRKEASNASNQGKKYEYRLFVDPRKLYTQAKTCKTVHNWRKNADNKACAFNDRPDLTDTLRSVKLTAWDGIEYCLAELAPFLAKTGFWKDNDKWMKELGKNMQPGTLIGFLHGIGHFEKESSGNNQTQAYINTWRSTPFGYDEEQLPTGSENNLTKTLQQLPLSQEEIQVVVQSAKEREQWLEKMENGLSKGLADTRRPINDVTLWDWGYLVASLAKAAAHYLFHHRWPESPEQLSFRTLRINLDRLQLYAESDRITDLLGKQNAIEEAYKKVRQYLEFDLALGNRIHHDETGDYYLIPGVLPGEDPKTALRIAIQNIFRKESLEDCLPRVHFGTSVQAGHLDKKNQKNATRDNNAVIETIRELLVNPRRDARAEAPVQNNNNLSLFEDEWKNGKSENAERCSVCGLRPVGYPVTGDLPEVEKNLEPWALEKKAKERNLCRLCLNRRGRRAKKWAEQWAGEAQHSKPPMTIWTDEVADDDGRIALFVGSFGLDHWLDGSALETIRLSKNTGKNPSPARLFRITETARSFWTTINSEVLQEKVNTESCRIVLTPANTDKLDLGKFHTYELQCNPHGMRISFVWDSERGYFLSVENLNGLMKRHGYKQNMLSMITTVKNTFENKTCTLYQPSSYGTASSRRATICIKTANLSTIHYKPVIPLLAEPSVCMSLIPADKAVDVSLKVFEKYQQEMSRVQDRLPMGIGLVFFPRRTPIRAVMEAGRAMLNMLQSKPEEEWKVNDLKRQTNTIDLTFNNSISFSYKTSYGKDSEIPDIWHLCCFDSEGKAKQLNELTTESHVKVYPGRFDFEFLDTSGRRFDIYYDEHGRRPRNTRPFYLTDIQRIADLWQYIRSLSKSQIYQVIELIETKRTEWHVAPGTKDERTEVFRKFVQSTLAGAEWPTTHSWHTISEQETLVQAGVDGVLTDVAELYISILKSPSTENQKA
>NC_011059.1|WP_012506532.1|2181988_2183068_+|hypothetical-protein
MIHDYAAFQYSQLQDLVEKLDRTSKNLDSRNKKIKKEAEKLIEKIASKTISIDPHTAYLWFAAQTDTEHNQKLTSAIREQWTKRTPHQHLDQQHGIRTIPDRDKLDLLPPFSFVLSFGFELRKPFLSKDDEAFHLLDNPVRKDKVFKTPVIAASGWKGALRYALWQLGYPEDSPSVDRLFGNPRECSQHEKLHAGRLQFFSTHFNSIENSIGYEIITPHDRETGTVNSRQGPILLETIRAAENNQADFTLAYIPLFYDSNIYKEIVTDFHILVRGIHAMMTVYGFGAKTSSGFGVAKDSVQKGSISLVLPDPVMKEINATQASEGSKATVMVKPKPFSTLTELSATEILPDLSFDKEGV
>NC_011059.1|WP_081429339.1|2180823_2181984_+|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MSWHWPNVRQEPENILQMPNSLQKVPPITLSTLTPLWTGGPQAGVVDRIHETGMIGSLRWWFEVLVRGVGGKVLSPNGEKCAILDLEKYKKLTTQQKNDPEKLKECGLCDASLIFGATNWKRKFRLEIEDHTSDIHLGNISVNTGSNKPAKWFFNNHARKGNLTLKIISLTRDRKLFDPAIIAGLVQFVSDWGGLGARNQMGFGIVRPEQALDARPLYEHLARIRKQATNQQLPSLDNMFFVQLKPQDQSRFDPEASFTLKHELRKKIQEEEKRTAELQSKKPDDTLSHFIMGTIKPEKLASKIFISRPFDKDETSTIRLWGWLPKQSSRYDSSWNRQSIRQLIYQHIEQNYHIEPDDWVELNHPDPKLKNSEDKFLKTLLRIDEG
>NC_011059.1|WP_150084403.1|2179330_2180665_-|hypothetical-protein
MKSFLLLCLMITLMAGVSQAGEKTDDLVMVNLQSTLTELNDFRPGYIYLVVANKSDTLLNVDRIEIAEYPDFIDVKKSSLDSVVVSREKKSLFYPDKKTINAGESEVYEVFITASDQVKPGKHLLLFNVFYNGWVSAKSENASIAEKSPRDALSPKVSKTGSLTLSHELDVKVFGENEILGALSNAVTFLMMPGFIMVIVFAMVWKISAPVSYQEKLPAWFKETKVADLQFWVIAITMSLIMARWLYPILTQLFTSGRRNYLYGYGFYDIVMMWGFSVLVGGFSGLIAGWVVSLYRKTKYSKAIHGDENPLELLQKAVVLGVNQSWLKKISVKKTGKSGYIVEQDAVDKDSLWVIPRIQVTWQAGADELNERFEQEIYDPKTKLAVLLETLAEGERQKQAGKGLEDIDWEKNTRFIERPLVVKKADFDSCHDTENIFSCDTSKQ
>NC_011059.1|WP_012506529.1|2178120_2179200_-|hypothetical-protein
MTTSLKVSFIWTRTFFQLFDNSCIQNSPYDFFVKPSAYKDKIKSLYTDESSLTLPWKLTGKNNLTNWFWKYYLNDIDPLSAPHETIANRCYPLYVPVRKSLTKQITVNWPSSGGSQNRGSFEGFFYRHGVAVVCTFSVHGCTSLKDAVEQGMSLRHDPLFSIPSTTSNVALTTVGDFCRNLLSEEIKVVTDWFDEEPFSLVTVVEGELNQEAQQGDSIQRALEALACWDKTWEKRELPVLSDHTISMKNNHAADIMYGHANSRVLWIPRLFIPGNNYALFWYSRNLLMATMQVKSFRDFLVRAADADRIKPGTRLGGYARQIGEIIRNMEKGLKTYRTLSAYRQIQDDKKLQAVLSAIS
>NC_011059.1|WP_012506528.1|2176062_2177061_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MYSSFTSLSIARFRFTIEPTEEISLPEYKGSAFRGGFGHAFKRATCITRDRYCEPCILKFSCTYFKVFESKVSRETAERLRLGGDAPHPFIIEPPLTRQGYFQPGDRLSFSLVLIGTAIGQLPFFVYAFMILGESFGIGKGRGRFRLVSVEDENGKQLYDNGNLAGGFVIRSADEIMKTDVSSDDDRMKLRFETPLRMKTAFGRDRKALVTGMHEPADFRVLLKSLYHRAFVLGQLYGEGVDEAEYDSRNLPLVDGTVAVENADIFWYDWERFSQRQERRMKLGGVMGEVTFSGKVAEYLPLFRLGEYLHIGKGTGFGLGKYRIAKESGKTP
>NC_011059.1|WP_012506527.1|2175841_2176066_-|CRISPR-associated-protein-Cas1
MTIEDAAFLRTLYIQEQGTVLRIENERFRVTVGDDDDEDIVNIPSIKVGQIVIFGACMVTPAAMRFCLSVGRPD
>NC_011059.1|WP_012506537.1|2190459_2190900_+|DUF937-domain-containing-protein
MTFDDLLAIGASAIRGNSDSATTGLDSGALATALGSLFAGNEGKPDFSWLLEKMKESNLDDIAASWLGNGENKAIPAELVNNILGSDMVANFASQLGLSESSAKQALADALPKMVDKGSSGGSLLQNIFDNAGGLDGLIGMARKFF
>NC_011059.1|WP_012506538.1|2191009_2191960_-|WD40-repeat-domain-containing-protein
MGFLSKLFGKKEVELKRPQVREDENLIRTLEGHQDRVLGVRFSPDGKKLVSGSFDEKVMLWDVATGAPLHTMSGHDTWVECVDYSPNGDRVASGSTDSTVRIWDPAPGKCVHLCKGHDTAVRMVAFSPDGKTLASCSRDTLIKLWDVETGRELKTLSGHISYIECVAWSNDGKRLVSCGEETVIRIWDVASGKNTASYATGDSLSHTACFSPDDSLIALCGRDAKVKILDAASGEIKHTLEGHDDGARSVCFSPDGTKAASVANDEKVILWDVVTGRLIHTYRGHVLEVQSVDISPDGTTIVSSSDDRKIKLWKLV
>NC_011059.1|WP_012506539.1|2192089_2193241_-|glycosyltransferase
MMIYQLSILFCLLVFFVIVLLNLKDFKKLPSRATSVSPLVSVLVPARNEDNTIARCIESLLIQDYGNFEIIVLNDGSTDRTAEVLQSIVSSVQGAALRVIDGTTLPDGWHGKAWACQQLGAEARGELLLFTDADTVHAPDSVRRAVAALDESRADMLSLTPYQETKSFWERLIIPVMYVIVFCYLPLRMVREHASEAFCFANGQFIMMQRKMYDLINGHSAVRRNIVEDVWLCKAVKRAGGSVAVYNGTDTVRCRMYRTLSEIWQGFSKNLFAGLGYNTIGLFSLIVMTALFYIVPYIFVFRALLLQDYSFFVFWLPCLQIALAMLMRLFIAVRFRQPLSGALLHGLSQLMLIALAANSFYLVRFGGGARWKGRQYDFSDHQS
>NC_011059.1|WP_012506540.1|2193342_2194227_-|ATP-phosphoribosyltransferase
MSASKQLLKLGLPKGSLQDSTLDLFAKAGFHFSVKSRSYFPSIDDDELEAILIRAQEMAHYVELGAFDVGLTGKDWIIETDADVVEVSDLVYSKASMRPVRWVLAVPESSSIQTVKDLEGKHIATEVVNITKKYLAENNVNAHVEFSWGATEVKPPELADAIVEVTETGSSLRANKLRIVEVLLESNTKLIANRNSWNDPWKREKIENMAMLLQGAIHAQGKVGLKMNAPKDALDKIMAFIPGLRTPTVSNLADDKWVALEVIVDEQTVRSVIPDLKRAGAEGIFEYHINKLID
>NC_011059.1|WP_012506541.1|2194245_2194983_-|UDP-2,3-diacylglucosamine-diphosphatase
MSKSFFISDIHLGLQDEGAEKEKIRHLEKLFTMVASDGAALYMVGDILDYWMEFRHVIPRYFSSFLCLLQELSRHDVRLYWFSGNHDFTLGRFFTDEYGVRCLYGMHEMLIDERRFVIGHGDGLDRSDIGYRLFVAMIRNRFNQRLLSSLQPDLAIAIMRRFSRMSRDRNPGENGYESDFLQQYADALVRQKDFDYFVCGHSHALKKKLLANARSHYINLGTWIHGSYPYAIFDNGVFSLQELSI
>NC_011059.1|WP_041702315.1|2195798_2196797_-|UbiA-family-prenyltransferase
MTATHRLGFTDKLRAHLELLDPVTWISVFPCLAGGVMASGAMQGTFHDYLLLLALFLMFGPLGTGFSQTINDYFDLELDRVNEPTRPIPSGRLSEKEALINSIVVFVLALGIGIVLGIHVGGTRGIFITSAIAVGLFVAYIYSAPPLKLKKNILTSAPAVGLSYSLITFLSANALFSDIRPEAVWLAVLNFFMAIALIIMNDFKSAKGDEESGLKSLTVMIGAKNTFLVAFAIIDMVFAVFAWLTFSWGFTILMYVILVSLVANITIQIMLYRDPKGGLSFMQHAVDDGFGNAIGKSDVQEHNSFLRYQVANNLLFLINLLVAAGMVGARYM
>NC_011059.1|WP_012506543.1|2196928_2198254_-|tRNA-(N6-isopentenyl-adenosine(37)-C2)-methylthiotransferase-MiaB
MTKKVSIRTFGCQMNQADTEIISSLLTAEGYCLVAEEDDADLVMLNTCAVRENAVEKIMHHLDSLKGLRRRRRGLVVGVIGCVPQYYREEMFQKSGVIDFIAGPDSYRKLPGLIRNAFQGIRGAELFLTQSETYGDIEPMRSGSISAFIPVMRGCNNMCAFCVVPFTRGRERSRSLQSVLDEVRRLEGQGYRELTLLGQNVNSYRDDEAGADFALLLDEVSKAAGEMRVRFTTSHPKDISEDLVNVVAQRENVCNAIHLPVQSGSSRMLEVMHRGHTRREYLDKIAMIRSAVPGVALSTDLIAGFCGETEEDHLQTLSLMEEVRFDYAYMFYYSVRPGTYAARHLTDDVALEEKKRRLQEIIDLQSGISGEIFGNDVGSVQEVLAESESRRSSDMLMGRSDTNRVVVFDRQHYQPGDLVRVVIESSTQATLIGRCQDPGEG
>NC_011059.1|WP_012506544.1|2198661_2199273_-|iron-sulfur-cluster-assembly-scaffold-protein
MLQQNDWVYTETLKEHFMNPKNILQGEDTDAFDGVGMEGNLSCGDQMMVVIKVDRDKEIITDCQWKTYGCASAIASTSVLSEMVKGMTLDQAFDVSPKDVTKELGGLPENKIHCSVLGDKALRAAINNYFERNGMADRMRKEQAKIICQCMNVTDAEIEEAVLEGARSFYELQEHTKIGTVCGQCKESAEGLIEQYCHLHFDH
>NC_011059.1|WP_012506545.1|2199256_2200462_-|aminotransferase-class-V-fold-PLP-dependent-enzyme
METRRVYLDHNATTPLHPEVKKEMIEAMEMFGNPSSMHAFGREAHANIEHARQSVAGFIGAHEDELVFVGSGSEANNTVLSLFACASNLCIPGFKARQTIITSRIEHPCVLETSQCLAHRGTTVKLLDVDRYGRIDIDQLKEYLSDDVGLVSVMTANNEIGTLQDISEIGRLAHENGSLMHTDAVQAFGKMPLDVDELGVDFLTMSAHKIYGPKGIGALYVRKGTPYCPFIRGGHQEKGRRAGTENTLGIMGLAKAVEMRALEMEDEARRFAAMKEVLVKGIEERIDNALFNGHPELSMPNTVNVSFPGAEGEAILLYLDLAGIAVSTGSACASGSLDPSHVLLATGSSAERAHGSIRISMGRETTMEEIEYVLDVLPGVISRIRSMSTAYIKGEEHVAAK
>NC_011059.1|WP_114616652.1|2200514_2201444_-|cysteine-synthase-A
MMNVYESITETVGRTPLVRIRRMADHSYADVYAKLESFNPLSSVKDRVGVAMIEDAERNGLIGPETTIIEPTSGNTGIALAFSCASRGYRLILTMPDTMSVERRRLLKILGAELVLTEGAAGMKGAIAEAERLVDSIPHSLMLQQFNNPANPETHRRTTAREIWDDTDGQVDIFIAGVGTGGTITGVGSVLRELKPGVHIVAVEPDDSPVISGGEPGPHKIQGIGAGFVPGNLDPSVIDEIITVSNQDAAETARKLARKEGILCGISSGAAMWAAMSVAARPAMEGKNIVVLLPDTGERYLSTWLFADE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_011059_2	2.1\|1536052\|33\|NC_011059\|CRISPRCasFinder,CRT	1536052-1536084	33	NC_011059.1	494741-494773	0	1.0

1. spacer 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT matches to position: 494741-494773, mismatch: 0, identity: 1.0

tccttccggcgtgacgaaggtgcaggatgggtg	CRISPR spacer
tccttccggcgtgacgaaggtgcaggatgggtg	Protospacer
*********************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_011059_2	2.23\|1537394\|33\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	1537394-1537426	33	MH617307	Microviridae sp. isolate ctbd738, complete genome	1876-1908	4	0.879
NC_011059_2	2.23\|1537394\|33\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	1537394-1537426	33	MH572288	Microviridae sp. isolate SD_SC_57, complete genome	1664-1696	5	0.848
NC_011059_2	2.10\|1536601\|33\|NC_011059\|CRISPRCasFinder,CRT	1536601-1536633	33	NZ_CP016452	Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence	1990534-1990566	7	0.788
NC_011059_2	2.23\|1537394\|33\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	1537394-1537426	33	MG945587	UNVERIFIED: Microviridae sp. isolate 4069-1801, complete genome	4227-4259	7	0.788
NC_011059_2	2.10\|1536601\|33\|NC_011059\|CRISPRCasFinder,CRT	1536601-1536633	33	NC_020548	Azoarcus sp. KH32C plasmid pAZKH, complete sequence	608828-608860	8	0.758
NC_011059_2	2.1\|1536052\|33\|NC_011059\|CRISPRCasFinder,CRT	1536052-1536084	33	LR606148	Rhizobium sp. Q54 genome assembly, plasmid: 5	16291-16323	9	0.727
NC_011059_2	2.4\|1536235\|33\|NC_011059\|CRISPRCasFinder,CRT	1536235-1536267	33	LR134132	Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12	82852-82884	9	0.727
NC_011059_2	2.7\|1536418\|33\|NC_011059\|CRISPRCasFinder,CRT	1536418-1536450	33	NZ_CP039966	Pseudorhodobacter sp. S12M18 plasmid unnamed2, complete sequence	65181-65213	9	0.727
NC_011059_2	2.7\|1536418\|33\|NC_011059\|CRISPRCasFinder,CRT	1536418-1536450	33	NZ_CP007130	Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence	268432-268464	9	0.727
NC_011059_2	2.21\|1537272\|33\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	1537272-1537304	33	MN103542	Enterococcus phage vB_EfaS_EF1c55, complete genome	31925-31957	9	0.727
NC_011059_2	2.21\|1537272\|33\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	1537272-1537304	33	KJ127303	Enterococcus phage VD13, complete genome	22603-22635	9	0.727
NC_011059_2	2.38\|1536052\|35\|NC_011059\|PILER-CR	1536052-1536086	35	LR606148	Rhizobium sp. Q54 genome assembly, plasmid: 5	16289-16323	9	0.743
NC_011059_2	2.47\|1536601\|35\|NC_011059\|PILER-CR	1536601-1536635	35	NZ_CP016452	Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence	1990532-1990566	9	0.743
NC_011059_3	3.1\|1896340\|37\|NC_011059\|CRISPRCasFinder	1896340-1896376	37	MH536819	Gordonia phage Fury, complete genome	62066-62102	9	0.757
NC_011059_3	3.1\|1896340\|37\|NC_011059\|CRISPRCasFinder	1896340-1896376	37	MH576960	Gordonia phage Pleakley, complete genome	62067-62103	9	0.757
NC_011059_2	2.2\|1536113\|33\|NC_011059\|CRISPRCasFinder,CRT	1536113-1536145	33	KX889068	Vibrio phage pVa5, complete genome	53500-53532	10	0.697
NC_011059_2	2.8\|1536479\|33\|NC_011059\|CRISPRCasFinder,CRT	1536479-1536511	33	NZ_CP018229	Rhizobium leguminosarum strain Vaf-108 plasmid unnamed1, complete sequence	25277-25309	10	0.697
NC_011059_2	2.8\|1536479\|33\|NC_011059\|CRISPRCasFinder,CRT	1536479-1536511	33	NZ_CP016290	Rhizobium leguminosarum strain Vaf10 plasmid unnamed3, complete sequence	71850-71882	10	0.697
NC_011059_7	7.3\|2189362\|34\|NC_011059\|CRISPRCasFinder,CRT,PILER-CR	2189362-2189395	34	MH884648	Caulobacter phage Kronos, complete genome	22843-22876	10	0.706
NC_011059_2	2.41\|1536235\|35\|NC_011059\|PILER-CR	1536235-1536269	35	LR134132	Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12	82850-82884	11	0.686

1. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH617307 (Microviridae sp. isolate ctbd738, complete genome) position: , mismatch: 4, identity: 0.879

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
tgtaaatccttaacctctcgttggtgagcagta	Protospacer
.**********************.*****.**.

2. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH572288 (Microviridae sp. isolate SD_SC_57, complete genome) position: , mismatch: 5, identity: 0.848

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
tttaaatcctcaacctctcgttgatgagcagta	Protospacer
. ********.******************.**.

3. spacer 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP016452 (Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence) position: , mismatch: 7, identity: 0.788

ttggccca---ctgctcgaaatgcgcaacgatgccg	CRISPR spacer
---gcctgaacctgctcgaaatgggcgacgatgccg	Protospacer
   ***..   ************ **.*********

4. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MG945587 (UNVERIFIED: Microviridae sp. isolate 4069-1801, complete genome) position: , mismatch: 7, identity: 0.788

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
acaagatctttaacctcacgttgatgagcggta	Protospacer
   *.***.******** **************.

5. spacer 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT matches to NC_020548 (Azoarcus sp. KH32C plasmid pAZKH, complete sequence) position: , mismatch: 8, identity: 0.758

ttggcccactgctcgaaatgcgcaacga-tgccg	CRISPR spacer
aatcccaactgctcgaaatgcgcagcgagcgcc-	Protospacer
    ** *****************.*** .***

6. spacer 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT matches to LR606148 (Rhizobium sp. Q54 genome assembly, plasmid: 5) position: , mismatch: 9, identity: 0.727

tccttccggcgtgacgaaggtgcaggatgggtg	CRISPR spacer
gtcttccggcgtgaccaaggtggaggaaatgac	Protospacer
 .************* ****** **** . *

7. spacer 2.4|1536235|33|NC_011059|CRISPRCasFinder,CRT matches to LR134132 (Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12) position: , mismatch: 9, identity: 0.727

aatcgcactgatgatgtgaatgggtcttttgag	CRISPR spacer
cggcctgctgatgatgttaatgggtctgttgat	Protospacer
 . * ..********** ********* ****

8. spacer 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP039966 (Pseudorhodobacter sp. S12M18 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.727

ggaaatagagaccggcagcaggaacgcgcactg	CRISPR spacer
tcagcaacagaccggcagcaggaacaggcactt	Protospacer
  *.  * *****************. *****

9. spacer 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP007130 (Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence) position: , mismatch: 9, identity: 0.727

ggaaatagagaccggcagcaggaacgcgcactg	CRISPR spacer
cgccgacgggaccggcagcacgaacgcgctctg	Protospacer
 *  .  *.*********** ******** ***

10. spacer 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MN103542 (Enterococcus phage vB_EfaS_EF1c55, complete genome) position: , mismatch: 9, identity: 0.727

gatacaatcaaaacagtcatgctcctcaaactg	CRISPR spacer
gatacaatcaaaacagccatactcccttactac	Protospacer
****************.***.****.. * .

11. spacer 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to KJ127303 (Enterococcus phage VD13, complete genome) position: , mismatch: 9, identity: 0.727

gatacaatcaaaacagtcatgctcctcaaactg	CRISPR spacer
gatacaatcaaaacagccatcctcccttactac	Protospacer
****************.*** ****.. * .

12. spacer 2.38|1536052|35|NC_011059|PILER-CR matches to LR606148 (Rhizobium sp. Q54 genome assembly, plasmid: 5) position: , mismatch: 9, identity: 0.743

tccttccggcgtgacgaaggtgcaggatgggtgag	CRISPR spacer
gtcttccggcgtgaccaaggtggaggaaatgacag	Protospacer
 .************* ****** **** . *  **

13. spacer 2.47|1536601|35|NC_011059|PILER-CR matches to NZ_CP016452 (Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence) position: , mismatch: 9, identity: 0.743

ttggccca---ctgctcgaaatgcgcaacgatgccgga	CRISPR spacer
---gcctgaacctgctcgaaatgggcgacgatgccgcc	Protospacer
   ***..   ************ **.*********

14. spacer 3.1|1896340|37|NC_011059|CRISPRCasFinder matches to MH536819 (Gordonia phage Fury, complete genome) position: , mismatch: 9, identity: 0.757

gcgtcacgcgtcaccagtcaccgcgcgaagcgctccc	CRISPR spacer
ggcgagcgcgtcagccgtcaccgcgcgaagcgcgcgc	Protospacer
*    .******* * ***************** * *

15. spacer 3.1|1896340|37|NC_011059|CRISPRCasFinder matches to MH576960 (Gordonia phage Pleakley, complete genome) position: , mismatch: 9, identity: 0.757

gcgtcacgcgtcaccagtcaccgcgcgaagcgctccc	CRISPR spacer
ggcgagcgcgtcagccgtcaccgcgcgaagcgcgcgc	Protospacer
*    .******* * ***************** * *

16. spacer 2.2|1536113|33|NC_011059|CRISPRCasFinder,CRT matches to KX889068 (Vibrio phage pVa5, complete genome) position: , mismatch: 10, identity: 0.697

tgtggatcttgctgatcttggtgcttcggggta	CRISPR spacer
ttaggatcttgcttatcttggttcttcatcaag	Protospacer
*  ********** ******** ****.  . .

17. spacer 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP018229 (Rhizobium leguminosarum strain Vaf-108 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.697

agggcaagaatgaaaatggatcgtggccgctgg	CRISPR spacer
gtcgggagaatggaaatggatcatggccgcctc	Protospacer
.  * .******.*********.*******.

18. spacer 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP016290 (Rhizobium leguminosarum strain Vaf10 plasmid unnamed3, complete sequence) position: , mismatch: 10, identity: 0.697

agggcaagaatgaaaatggatcgtggccgctgg	CRISPR spacer
gtcgggagaatggaaatggatcatggccgcctc	Protospacer
.  * .******.*********.*******.

19. spacer 7.3|2189362|34|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH884648 (Caulobacter phage Kronos, complete genome) position: , mismatch: 10, identity: 0.706

ccgcattggcgaacggggctctggaggcggcggc	CRISPR spacer
ggaggtacacgaacgatgctctggaggcggcggc	Protospacer
  . .*  .******. *****************

20. spacer 2.41|1536235|35|NC_011059|PILER-CR matches to LR134132 (Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12) position: , mismatch: 11, identity: 0.686

aatcgcactgatgatgtgaatgggtcttttgagga	CRISPR spacer
cggcctgctgatgatgttaatgggtctgttgattc	Protospacer
 . * ..********** ********* ****

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

27053 : 83596

Mycobacterium_phage(40.0%)

transposase,tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012504627.1\|27053_28520_-\|tRNA	glycine--tRNA ligase	A0A2I2L3K8	Orpheovirus	9.3e-37	27.8
WP_012504628.1\|28903_29377_+	rhodanese-like domain-containing protein	NA	NA	NA	NA
WP_012504629.1\|29459_29696_+	sulfurtransferase TusA family protein	NA	NA	NA	NA
WP_150084432.1\|29790_31158_+	cobyrinate a,c-diamide synthase	NA	NA	NA	NA
WP_012504631.1\|31554_31890_+	TusE/DsrC/DsvC family sulfur relay protein	NA	NA	NA	NA
WP_012504632.1\|31944_33198_+	dissimilatory-type sulfite reductase subunit alpha	A0A060BKJ3	Podovirus	3.9e-108	46.2
WP_012504633.1\|33270_34350_+	dissimilatory-type sulfite reductase subunit beta	NA	NA	NA	NA
WP_012504634.1\|34373_36110_+	NAD(P)-binding protein	NA	NA	NA	NA
WP_012504635.1\|36154_36526_+	hypothetical protein	NA	NA	NA	NA
WP_012504636.1\|36538_36898_+	sulfurtransferase complex subunit TusD	NA	NA	NA	NA
WP_012504637.1\|36902_37280_+	sulfurtransferase complex subunit TusC	NA	NA	NA	NA
WP_012504638.1\|37322_37616_+	sulfurtransferase complex subunit TusB	NA	NA	NA	NA
WP_012504639.1\|37659_38106_+	hypothetical protein	NA	NA	NA	NA
WP_012504640.1\|38102_39098_+	menaquinol oxidoreductase	NA	NA	NA	NA
WP_012504641.1\|39100_40750_+	(Fe-S)-binding protein	NA	NA	NA	NA
WP_114617896.1\|40754_41129_+	hypothetical protein	NA	NA	NA	NA
WP_012504643.1\|41125_41902_+	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_012504644.1\|41911_43063_+	polysulfide reductase NrfD	NA	NA	NA	NA
WP_012504645.1\|43179_43629_+	bifunctional precorrin-2 dehydrogenase/sirohydrochlorin ferrochelatase	NA	NA	NA	NA
WP_012504646.1\|43730_45119_+	uroporphyrinogen-III C-methyltransferase	NA	NA	NA	NA
WP_012504647.1\|45491_46079_+	hypothetical protein	NA	NA	NA	NA
WP_012504648.1\|46211_49535_-	patatin-like protein	NA	NA	NA	NA
WP_012504649.1\|49763_51404_+	hypothetical protein	NA	NA	NA	NA
WP_012504650.1\|51473_51779_-\|protease	ATP-dependent Clp protease adaptor ClpS	NA	NA	NA	NA
WP_012504651.1\|51860_52805_-	LD-carboxypeptidase	NA	NA	NA	NA
WP_012504652.1\|52932_53199_-	ATP synthase F1 subunit epsilon	NA	NA	NA	NA
WP_012504653.1\|53214_54603_-	F0F1 ATP synthase subunit beta	NA	NA	NA	NA
WP_012504654.1\|54942_55479_+	TlpA family protein disulfide reductase	NA	NA	NA	NA
WP_012504655.1\|55551_57420_+	phosphoenolpyruvate carboxykinase (GTP)	NA	NA	NA	NA
WP_041702340.1\|57709_59119_+	aromatic hydrocarbon degradation protein	NA	NA	NA	NA
WP_012504657.1\|59253_59466_-	dodecin domain-containing protein	NA	NA	NA	NA
WP_012504658.1\|59964_61512_+	polysulfide reductase NrfD	NA	NA	NA	NA
WP_012504659.1\|61524_64380_+	molybdopterin-dependent oxidoreductase	NA	NA	NA	NA
WP_150084434.1\|64495_65410_+	TSUP family transporter	NA	NA	NA	NA
WP_012504661.1\|65413_65833_+	DUF1634 domain-containing protein	NA	NA	NA	NA
WP_012504662.1\|66038_66551_+	NADH dehydrogenase	NA	NA	NA	NA
WP_012504663.1\|66922_68776_-	DNA helicase RecQ	A0A1V0SGM9	Hokovirus	3.8e-88	35.6
WP_012504664.1\|69350_70124_+	restriction endonuclease	NA	NA	NA	NA
WP_012504668.1\|71760_72810_+	FRG domain-containing protein	NA	NA	NA	NA
WP_049753567.1\|72886_73462_-\|transposase	IS256 family transposase	A0A2P1JQX9	Mycobacterium_phage	7.8e-40	49.4
WP_049753568.1\|73489_74026_-	hypothetical protein	A0A2P1JQX9	Mycobacterium_phage	1.3e-28	38.5
WP_012504669.1\|74649_75186_+	SLATT domain-containing protein	NA	NA	NA	NA
WP_012504670.1\|75188_76901_+	RelA/SpoT domain-containing protein	NA	NA	NA	NA
WP_150084260.1\|78528_79598_-\|transposase	IS630 family transposase	NA	NA	NA	NA
WP_012504674.1\|80533_80935_-\|transposase	transposase	NA	NA	NA	NA
WP_012504675.1\|80931_81225_-\|transposase	transposase	NA	NA	NA	NA
WP_012504677.1\|81945_82173_-	hypothetical protein	NA	NA	NA	NA
WP_012504678.1\|82312_83596_-\|transposase	IS110 family transposase	NA	NA	NA	NA

DBSCAN-SWA_2

659192 : 687758

Bacillus_virus(16.67%)

integrase,transposase,protease

attL 663151:663165|attR 685872:685886

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012505208.1\|659192_660512_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.9e-121	52.7
WP_012505209.1\|660805_661990_+\|integrase	site-specific integrase	NA	NA	NA	NA
WP_041702177.1\|661970_662429_+	hypothetical protein	NA	NA	NA	NA
WP_041702179.1\|662435_662951_+	hypothetical protein	NA	NA	NA	NA
663151:663165	attL	NA	NA	NA	NA
WP_012505211.1\|663468_664488_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_012505212.1\|664492_666016_+	nucleotide-binding protein	NA	NA	NA	NA
WP_012505213.1\|666019_666760_+	ATP-binding cassette domain-containing protein	W6JKT0	Anomala_cuprea_entomopoxvirus	1.7e-15	27.8
WP_012505214.1\|666743_667517_+	ABC transporter permease	NA	NA	NA	NA
WP_012505215.1\|667513_668338_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_012505216.1\|668552_668903_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_041702421.1\|669006_669657_+	AAA family ATPase	K7R2R7	Vibrio_phage	1.1e-16	30.6
WP_012505218.1\|669653_669920_+	hypothetical protein	NA	NA	NA	NA
WP_012505219.1\|669916_670357_+	hypothetical protein	NA	NA	NA	NA
WP_012505220.1\|670344_671007_+	conjugal transfer protein TraF	NA	NA	NA	NA
WP_012505221.1\|670903_672139_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	2.9e-31	30.9
WP_153304034.1\|672576_672819_+	hypothetical protein	NA	NA	NA	NA
WP_012505223.1\|672972_674904_+	relaxase/mobilization nuclease and DUF3363 domain-containing protein	NA	NA	NA	NA
WP_012505225.1\|677700_678336_+	HIT domain-containing protein	NA	NA	NA	NA
WP_012505226.1\|678335_678902_+	hypothetical protein	NA	NA	NA	NA
WP_012505227.1\|678898_679657_+	hypothetical protein	NA	NA	NA	NA
WP_150084293.1\|679604_679991_+	hypothetical protein	NA	NA	NA	NA
WP_012505229.1\|680181_681297_+	thiamine-monophosphate kinase	NA	NA	NA	NA
WP_012505230.1\|681256_681751_+	dUTP pyrophosphatase	A0A0K2FMI0	Brevibacillus_phage	8.5e-35	49.1
WP_150084295.1\|681808_682195_-\|transposase	transposase	NA	NA	NA	NA
WP_012505233.1\|684169_684949_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_012505234.1\|684978_685464_-\|transposase	transposase	NA	NA	NA	NA
WP_041702189.1\|685848_686136_+	lipoprotein	NA	NA	NA	NA
685872:685886	attR	NA	NA	NA	NA
WP_012505237.1\|686774_687758_-\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	7.9e-08	30.1

DBSCAN-SWA_3

2274015 : 2328418

Streptococcus_phage(25.0%)

integrase,transposase,tRNA

attL 2294501:2294517|attR 2334053:2334069

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012506633.1\|2274015_2275053_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	1.8e-63	41.9
WP_012506635.1\|2276124_2276385_-	type II toxin-antitoxin system RelE/ParE family toxin	A0A1S5SCV8	Streptococcus_phage	2.1e-13	42.5
WP_041702602.1\|2276368_2276593_-	TraY domain-containing protein	NA	NA	NA	NA
WP_150084410.1\|2277033_2278599_+	Fic family protein	NA	NA	NA	NA
WP_012506638.1\|2279141_2280125_+\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	3.9e-07	29.6
WP_012506640.1\|2280457_2281162_-	hypothetical protein	NA	NA	NA	NA
WP_012506641.1\|2281175_2283197_-	hypothetical protein	NA	NA	NA	NA
WP_167317497.1\|2283233_2284874_-	radical SAM protein	NA	NA	NA	NA
WP_081429342.1\|2285204_2285663_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_012506644.1\|2285751_2286993_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	1.4e-30	30.7
WP_150084412.1\|2286995_2287364_-	hypothetical protein	NA	NA	NA	NA
WP_081429344.1\|2287484_2287847_-\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_012506645.1\|2287901_2288192_-\|transposase	transposase	NA	NA	NA	NA
WP_012506646.1\|2288578_2290645_+	ATP-binding protein	NA	NA	NA	NA
WP_012506647.1\|2290758_2291403_+	Mrr restriction system protein	NA	NA	NA	NA
WP_012506648.1\|2291607_2292180_+	peptidylprolyl isomerase	A0A1B1IVS0	uncultured_Mediterranean_phage	1.9e-33	51.6
WP_012506649.1\|2292262_2292616_+	preprotein translocase subunit YajC	NA	NA	NA	NA
WP_012506650.1\|2292625_2293741_+	glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit	R4TGJ8	Halovirus	2.4e-53	36.7
2294501:2294517	attL	NA	NA	NA	NA
WP_012506651.1\|2294985_2295642_+	tetratricopeptide repeat protein	NA	NA	NA	NA
WP_012506652.1\|2295648_2297076_+	B12-binding domain-containing radical SAM protein	NA	NA	NA	NA
WP_012506653.1\|2297180_2297606_+	cytochrome c5 family protein	NA	NA	NA	NA
WP_012506654.1\|2297803_2298175_+	cytochrome c5 family protein	NA	NA	NA	NA
WP_012506655.1\|2298436_2298691_+	hypothetical protein	NA	NA	NA	NA
WP_012506656.1\|2298769_2299570_+	pyrroline-5-carboxylate reductase	A0A1X9I6T5	Streptococcus_phage	1.8e-34	35.7
WP_012506657.1\|2299587_2300898_+	hypothetical protein	NA	NA	NA	NA
WP_012506658.1\|2300860_2301253_-	molybdenum cofactor biosynthesis protein MoaE	NA	NA	NA	NA
WP_012506659.1\|2301255_2301513_-	MoaD/ThiS family protein	NA	NA	NA	NA
WP_012506660.1\|2301505_2302732_-	molybdopterin molybdotransferase MoeA	NA	NA	NA	NA
WP_012506661.1\|2302728_2303673_-	bifunctional molybdenum cofactor biosynthesis protein MoaC/MoaB	NA	NA	NA	NA
WP_012506662.1\|2303804_2304815_-	GTP 3',8-cyclase MoaA	NA	NA	NA	NA
WP_012506663.1\|2304861_2305719_-	glycerophosphoryl diester phosphodiesterase	NA	NA	NA	NA
WP_012506664.1\|2305767_2306283_-	RsbRD N-terminal domain-containing protein	NA	NA	NA	NA
WP_012506665.1\|2306404_2306725_-	hypothetical protein	NA	NA	NA	NA
WP_012506666.1\|2306966_2307155_+	YqaE/Pmp3 family membrane protein	NA	NA	NA	NA
WP_150084414.1\|2307324_2308488_+	bifunctional molybdenum cofactor guanylyltransferase MobA/molybdopterin-guanine dinucleotide biosynthesis adaptor protein MobB	NA	NA	NA	NA
WP_012506668.1\|2308465_2308981_+	universal stress protein	NA	NA	NA	NA
WP_012506669.1\|2309065_2310295_-	NADH:ubiquinone reductase (Na(+)-transporting) subunit F	NA	NA	NA	NA
WP_012506670.1\|2310310_2310937_-	NADH:ubiquinone reductase (Na(+)-transporting) subunit E	NA	NA	NA	NA
WP_012506671.1\|2310938_2311568_-	NADH:ubiquinone reductase (Na(+)-transporting) subunit D	NA	NA	NA	NA
WP_012506672.1\|2311583_2312219_-	NADH:ubiquinone reductase (Na(+)-transporting) subunit C	NA	NA	NA	NA
WP_012506673.1\|2312205_2313360_-	NADH:ubiquinone reductase (Na(+)-transporting) subunit B	NA	NA	NA	NA
WP_012506674.1\|2313363_2314710_-	Na(+)-translocating NADH-quinone reductase subunit A	NA	NA	NA	NA
WP_012506675.1\|2315434_2317654_+	molybdopterin-dependent oxidoreductase	A0A077SK27	Escherichia_phage	3.3e-46	27.4
WP_012506676.1\|2317657_2318224_+	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_012506677.1\|2318226_2319219_+	polysulfide reductase NrfD	NA	NA	NA	NA
WP_167317498.1\|2319293_2319455_-	hypothetical protein	NA	NA	NA	NA
WP_012506678.1\|2319579_2320266_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_153304038.1\|2320459_2320630_-	hypothetical protein	NA	NA	NA	NA
WP_041702323.1\|2320652_2320868_+	hypothetical protein	NA	NA	NA	NA
WP_081429346.1\|2321245_2321533_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_012506679.1\|2321454_2321697_-	hypothetical protein	NA	NA	NA	NA
WP_012506680.1\|2321856_2322387_+	hypothetical protein	NA	NA	NA	NA
WP_012506681.1\|2322484_2323582_+	hypothetical protein	NA	NA	NA	NA
WP_150084549.1\|2323571_2324066_+	threonine transporter	NA	NA	NA	NA
WP_012506683.1\|2324062_2325889_+	hypothetical protein	NA	NA	NA	NA
WP_012506684.1\|2325977_2326868_+	hypothetical protein	NA	NA	NA	NA
WP_012504678.1\|2327134_2328418_-\|transposase	IS110 family transposase	NA	NA	NA	NA
2334053:2334069	attR	NA	NA	NA	NA

DBSCAN-SWA_4

2456558 : 2493804

Leptospira_phage(28.57%)

integrase,transposase,protease

attL 2452652:2452667|attR 2496799:2496814

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2452652:2452667	attL	NA	NA	NA	NA
WP_012506808.1\|2456558_2457410_+\|protease	rhomboid family intramembrane serine protease	NA	NA	NA	NA
WP_012506809.1\|2457443_2457899_+	DUF1232 domain-containing protein	NA	NA	NA	NA
WP_012506810.1\|2458204_2458672_+	periplasmic heavy metal sensor	NA	NA	NA	NA
WP_012506811.1\|2459097_2460297_-	S8 family serine peptidase	NA	NA	NA	NA
WP_041702330.1\|2460296_2461175_-	M24 family metallopeptidase	NA	NA	NA	NA
WP_012506813.1\|2461164_2462466_-	tetratricopeptide repeat protein	NA	NA	NA	NA
WP_012506814.1\|2462480_2463902_-	B12-binding domain-containing radical SAM protein	NA	NA	NA	NA
WP_012506815.1\|2463946_2465281_-	radical SAM protein	NA	NA	NA	NA
WP_012506816.1\|2465352_2465694_-	hypothetical protein	NA	NA	NA	NA
WP_012506818.1\|2466256_2467249_+	aldo/keto reductase	NA	NA	NA	NA
WP_012506819.1\|2467477_2468452_+	hypothetical protein	NA	NA	NA	NA
WP_012506820.1\|2468512_2468893_+	hypothetical protein	NA	NA	NA	NA
WP_041702333.1\|2469157_2469376_+	hypothetical protein	NA	NA	NA	NA
WP_012506822.1\|2469540_2469978_+	thiol-disulfide oxidoreductase DCC family protein	NA	NA	NA	NA
WP_041702334.1\|2470167_2472264_-	TonB-dependent receptor	NA	NA	NA	NA
WP_012506824.1\|2472429_2472801_+	transcriptional repressor	NA	NA	NA	NA
WP_012506825.1\|2473250_2474030_+	PAS domain-containing protein	NA	NA	NA	NA
WP_012504678.1\|2474590_2475874_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_012506826.1\|2476013_2476166_+	hypothetical protein	NA	NA	NA	NA
WP_012506827.1\|2476378_2477464_+	Fic family protein	D7RWK9	Brochothrix_phage	5.6e-23	29.9
WP_012506828.1\|2477892_2478045_+	hypothetical protein	NA	NA	NA	NA
WP_012506829.1\|2478074_2481503_-	TIR domain-containing protein	NA	NA	NA	NA
WP_150084424.1\|2481622_2482087_-	DUF4231 domain-containing protein	A0A2H4JD89	uncultured_Caudovirales_phage	9.8e-17	39.7
WP_150084426.1\|2485184_2486292_+\|transposase	IS3-like element ISPae1 family transposase	S5WIU1	Leptospira_phage	5.3e-53	44.1
WP_012506835.1\|2486337_2486586_-\|transposase	transposase	NA	NA	NA	NA
WP_150084428.1\|2486778_2487886_+\|transposase	IS3-like element ISPae1 family transposase	S5WIU1	Leptospira_phage	5.3e-53	44.1
WP_012506837.1\|2488074_2491029_-	ATP-dependent helicase	A7KV33	Bacillus_phage	3.2e-36	24.9
WP_012506838.1\|2491043_2492066_-	DNA cytosine methyltransferase	A0A0R6PG08	Moraxella_phage	7.6e-46	34.0
WP_012506839.1\|2492391_2493072_-	hypothetical protein	NA	NA	NA	NA
WP_081429348.1\|2493273_2493804_-\|integrase	tyrosine-type recombinase/integrase	A0A1P8DJJ6	Virus_Rctr41k	1.3e-28	53.9
2496799:2496814	attR	NA	NA	NA	NA

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_011061

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_011059

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection