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_013520	Veillonella parvula DSM 2008, complete sequence	11 crisprs	DEDDh,cas3,WYL,csa3,cas6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,csx19,csx10gr5,csx20,cas1,cas2,csx1	0	0	5	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_013520_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_1

2053912-2054256

TypeIII

Consensus_repeat	Method
GTTTCCGTCCCCTAATGGGGATTATTTAATTTAAC	CRISPRCasFinder
TTTCCGTNCCCNANTGGGGATTATTTAATTTAAC	CRT
TTTCCGTCCCCTAATGGGGATTATTTAATTTAAC	PILER-CR

4 spacers

cas6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10

The CRISPR arrays of NC_013520_1

>merge|NC_013520|1|2053912-2054256|CRISPRCasFinder,CRT,PILER-CR
CTTTTCTGACCCCATTGGAGATTATTTAATTTAAAACCACGTATGCTGCAGTTGGAATTCCTAAGCGCTATTATGATATGTTTCCGTCCCCTAATGGGGATTATTTAATTTAACCGTGTACGGTAATTTATTCGATAATACAGAAGATAAGTTTGGGTTTCCGTCCCCTAATAGGGATTATTTAATTTAACTGGCTAAGAAGCACGCCTTACTCGGTGCATCAAGTAGTGCATTTCCGTCCCCTAATGGGGATTATTTAGTTTAACAACAATGCTAGTCAAAAATGAAACAAAATATTGTTGGTATTTTGGTTTCCGTTCCCATCAGGGGATTATTTAATTTAAC

>NC_013520|1|1|2053912-2054256|CRISPRCasFinder
CTTTTCTGACCCCATTGGAGATTATTTAATTTAAA	ACCACGTATGCTGCAGTTGGAATTCCTAAGCGCTATTATGATAT
GTTTCCGTCCCCTAATGGGGATTATTTAATTTAAC	CGTGTACGGTAATTTATTCGATAATACAGAAGATAAGTTTGG
GTTTCCGTCCCCTAATAGGGATTATTTAATTTAAC	TGGCTAAGAAGCACGCCTTACTCGGTGCATCAAGTAGTGC
ATTTCCGTCCCCTAATGGGGATTATTTAGTTTAAC	AACAATGCTAGTCAAAAATGAAACAAAATATTGTTGGTATTTTG
GTTTCCGTTCCCATCAGGGGATTATTTAATTTAAC

>NC_013520|1|1|2053913-2054256|CRT
TTTTCTGACCCCATTGGAGATTATTTAATTTAAA	ACCACGTATGCTGCAGTTGGAATTCCTAAGCGCTATTATGATATG
TTTCCGTCCCCTAATGGGGATTATTTAATTTAAC	CGTGTACGGTAATTTATTCGATAATACAGAAGATAAGTTTGGG
TTTCCGTCCCCTAATAGGGATTATTTAATTTAAC	TGGCTAAGAAGCACGCCTTACTCGGTGCATCAAGTAGTGCA
TTTCCGTCCCCTAATGGGGATTATTTAGTTTAAC	AACAATGCTAGTCAAAAATGAAACAAAATATTGTTGGTATTTTGG
TTTCCGTTCCCATCAGGGGATTATTTAATTTAAC

>NC_013520|1|1|2053992-2054177|PILER-CR
TTTCCGTCCCCTAATGGGGATTATTTAATTTAAC	CGTGTACGGTAATTTATTCGATAATACAGAAGATAAGTTTGGG
TTTCCGTCCCCTAATAGGGATTATTTAATTTAAC	TGGCTAAGAAGCACGCCTTACTCGGTGCATCAAGTAGTGCA
TTTCCGTCCCCTAATGGGGATTATTTAGTTTAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_012864986.1\|2043400_2043844_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	unknown	unknown	gnl\|CDD\|376794
NC_013520.1\|WP_012864990.1\|2047033_2047570_-\|flavin-reductase	unknown	unknown	gnl\|CDD\|224766
NC_013520.1\|WP_012864989.1\|2045493_2046828_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	unknown	unknown	gnl\|CDD\|271357
NC_013520.1\|WP_012864993.1\|2048470_2049730_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_013520.1\|WP_012864987.1\|2043882_2044605_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	unknown	unknown	gnl\|CDD\|236821
NC_013520.1\|WP_009351567.1\|2053689_2053854_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865003.1\|2062883_2065139_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	unknown	unknown	gnl\|CDD\|206754
NC_013520.1\|WP_012864985.1\|2042801_2043401_-\|DNA-3-methyladenine-glycosylase-I	unknown	unknown	gnl\|CDD\|377025
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	gnl\|CDD\|187793
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|337605
NC_013520.1\|WP_012864988.1\|2044658_2045237_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	gnl\|CDD\|380071
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|171440
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	gnl\|CDD\|376794	pfam02481, DNA_processg_A, DNA recombination-mediator protein A. The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In H. pylori, dprA is required for natural chromosomal and plasmid transformation. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyze the homology-dependent formation of joint molecules. While the E.coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation.	4.2591e-42
NC_013520.1\|WP_012864990.1\|2047033_2047570_-\|flavin-reductase	gnl\|CDD\|224766	COG1853, COG1853, Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only].	7.69809e-14
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	gnl\|CDD\|271357	cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain. This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease.	2.15079e-92
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	1.45925e-11
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	gnl\|CDD\|236821	PRK11017, codB, cytosine permease; Provisional.	1.6067e-80
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	gnl\|CDD\|206754	cd06223, PRTases_typeI, Phosphoribosyl transferase (PRT)-type I domain. Phosphoribosyl transferase (PRT) domain. The type I PRTases are identified by a conserved PRPP binding motif which features two adjacent acidic residues surrounded by one or more hydrophobic residue. PRTases catalyze the displacement of the alpha-1'-pyrophosphate of 5-phosphoribosyl-alpha1-pyrophosphate (PRPP) by a nitrogen-containing nucleophile. The reaction products are an alpha-1 substituted ribose-5'-phosphate and a free pyrophosphate (PP). PRPP, an activated form of ribose-5-phosphate, is a key metabolite connecting nucleotide synthesis and salvage pathways. The type I PRTase family includes a range of diverse phosphoribosyl transferase enzymes and regulatory proteins of the nucleotide synthesis and salvage pathways, including adenine phosphoribosyltransferase EC:2.4.2.7., hypoxanthine-guanine-xanthine phosphoribosyltransferase, hypoxanthine phosphoribosyltransferase EC:2.4.2.8., ribose-phosphate pyrophosphokinase EC:2.7.6.1., amidophosphoribosyltransferase EC:2.4.2.14., orotate phosphoribosyltransferase EC:2.4.2.10., uracil phosphoribosyltransferase EC:2.4.2.9., and xanthine-guanine phosphoribosyltransferase EC:2.4.2.22.	0.00471683
NC_013520.1\|WP_012864985.1\|2042801_2043401_-\|DNA-3-methyladenine-glycosylase-I	gnl\|CDD\|377025	pfam03352, Adenine_glyco, Methyladenine glycosylase. The DNA-3-methyladenine glycosylase I is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.	2.49355e-108
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	gnl\|CDD\|187793	cd09662, Csm5_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	2.13113e-14
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|337605	pfam10040, CRISPR_Cas6, CRISPR-associated endoribonuclease Cas6. Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily. It is among the most widely distributed Cas proteins and is found in both bacteria and archaea. Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes.	0.000700525
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	3.99136e-70
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	gnl\|CDD\|380071	pfam17953, Csm4_C, CRISPR Csm4 C-terminal domain. Clustered, regularly interspaced, short palindromic repeat (CRISPR) loci play a pivotal role in the prokaryotic host defense system against invading genetic materials. The CRISPR loci are transcribed to produce CRISPR RNAs (crRNAs), which form interference complexes with CRISPR-associated (Cas) proteins to target the invading nucleic acid for degradation. The interference complex of the type III-A CRISPR-Cas system is composed of five Cas proteins (Csm1-Csm5) and a crRNA, and targets invading DNA. This entry represents the C-terminal domain found in Csm4. Csm4 structurally resembles Cmr3, a component of the type III-B CRISPR-Cas interference complex. Studies indicate that Csm3-Csm4 complex binds single-stranded RNA in a non-sequence-specific manner. Structural analysis show, Csm3 and Csm4 have one and two ferredoxin-like folds (also known as an RRM-like fold), respectively. The long beta-hairpin inserted into the C-terminal ferredoxin-like fold of Csm4, is well-conserved in the Cmr3 structure. The corresponding beta-hairpin of Cmr3 binds the D1 domain of Cmr2, as observed in the Cmr2-Cmr3 complex structure. Furthermore, it is suggested that the hairpin of Csm4 is responsible for the interaction with Csm1 (ortholog of Cmr2).	1.09285e-31
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	gnl\|CDD\|171440	PRK12365, PRK12365, ribonucleoside-diphosphate reductase subunit alpha.	0.00322333
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	0

>NC_013520.1|WP_009351567.1|2053689_2053854_+|hypothetical-protein
MAIHKLSAILGTIIMGIGSFITCLATTESTITLGNGMLVVSIIMMGFGYSKWQP
>NC_013520.1|WP_012864995.1|2052379_2053684_+|cytosine-permease
MSKEKLEFVEPVDTNTDNEYSREPVPLGARKSCFSLTIVWTGFVFLVTSMMAGGGLAAGLTFNELLLAMILGNIFLCIIAGLVSVIAYKTGLTFALLTRYSFGQEGSRIASLFVPIVNLGWYTIQAALYGHFIAQVFNLSYTGEVIAMMLSAVIMGIFAVLGIKSLAVFGYIAIPSIVFLSLGTAARSVQTIGGWQELFSYVPLQPIDLLSGITIVIGTWILSTATCIADIMRYGKSKKDVITASTIGLLGGNTLMISCGAIAGVAMNDGDLINVLLSFGLVFPSLLLLTTNIFTTNGANLYSTSLNLANSFKLNRNIMLAVLIAISALATMTQPYKIDSLFVFLSTLGIIVPPLCGIILADFYLVHRGKYIDYNKATFKKWNLVPWITWAIALVCVKFIPFGLASLNGIVIGALLYAVITYIVKPNVISESKG
>NC_013520.1|WP_012864994.1|2050222_2051641_+|sodium:solute-symporter-family-protein
MDSLTIIWVIVCAYLLLNLLVGVYCHIRVKDSTDYLLAGRRIGVLMTAGTLAATEIGGGSTVGVAAKAYGSWGLSAGWYVVSAGIGVILVAFIAPLLRRAMATTVPEIIGRRFGASSHLITSILSMLATITLAGVQITATATIISVLTGLSTELAILICGAVLVIYTMSGGMWSVTMTDVIHFFVLVGGFSLAVPFVLHNVGGWESVVAKLPPEQLGFTKVGWKTIIGLIIMYFMTFSTGQESVQRYFAAKDERTAVLGSIICGIIMALFAFVPAVLGLVALAEFPNIEANNAVATVALNLMPPVMAGFVMAAVVSATLSSGAGDLLGAATVFTKDIVEHHFGKSLTDAQLTNYSRLCVLFLGIIAIIISLVSKAIIPMLVFAFTMRSAGPFAAFLLGLTWKNATAGAGIWSIVLGSIAGVYWEFVGNPYGIMSIIFGSIVSLIVFVAVVFIERSMGKPPAPPAIPDDVKEI
>NC_013520.1|WP_012864993.1|2048470_2049730_-|hypothetical-protein
MLRKSLIMMALATAFTMNISAVQIEVQKGQPPMPGADASIPTNAYENYRHINKVTEQEAELYSQFAKSNPKNPPSTPDKLNLEHPGFSKALELADYSQSTVVLIHEGDKNIRLSVPNVSFRGDVVEIPSGKEGSFFAVRSLSAFLVVGPPHGKALDTYSESKGKYMYPGLRNTSWKFMSNNARVMYTEFTLNDTKTAYGITYGGWVNTEDPYQDQAPEVVMSNYIIPSIESLAGLDSYSQIEHWGNFHYRIPKTAKLVSEAVENERHEVRTYEDTGVKIRVIRSAIMSKETDNTLIKVPIIYYLHKYNDLETPTQYAVVWNNGIPGSLVDAYKPNRESYLRHVMKDSVYYYSYRINYDESKTSYTHKQLRNMIEYVGFDDAARLRKEPQWREKGSYKERLENSPVFIPWYMEWVKLLTQ
>NC_013520.1|WP_012864990.1|2047033_2047570_-|flavin-reductase
MKPFETKDNQAFTMFENRWALVTAGTLDDFNTCTVSWGSMGNVWGPNGGDMSTVTVYIHPARYTQEFMAKYDTFTVSFFPESYRKALGYLGSHSGRDEDKVANSGLTPVAAGDGVTFKEAELTFVCKKLYEHQFDEAHLAEKVKDYYASNPAVYTQAGHDRWEPHYMYIGEVVDAIEG
>NC_013520.1|WP_012864989.1|2045493_2046828_+|hypothetical-protein
MTKLPLLACAFIMSTILSPVGAIDVNIPGADSKISKDAYINYQATNPAIEQDVANYVEALKAMDKTKGISKSEMEYAKAISIYRAQHYHNTVISVHDQYNQIRLSFPVAGIKSDYHIGRYKNPSRTIEDYRVLTDNGSLNLEIDYADFKDYDWRNTKIAYEKLTDKDVRNFLQANAKRKSSKQISDIKGTVFSYPTVTYSTWDSMKMPHLKNAKKTTLTIDTINFKFKGYNMRYPLYHAGFVYYDNNPVLNKVPTDKLLANYVLPSVQNLNELNQYSRIESLNGVQYRVPKDAIYEGESKGTDHQDIRYYKKGDITFFISTDNVPKNPYAHEIVINGHYNFKTDLNTFWDIYRYHPSASDYINYSIVWNNNIPGLSIHSYEPNKNDHILNFNSYDGIYSFTYTIFYPSFLSAEEVQKLRNMIEFFDSTNNPNFKMQEHVLFPEA
>NC_013520.1|WP_012864988.1|2044658_2045237_-|hypothetical-protein
MKTKFIAISLGVALLLVSNVSSVADASWLSKAMDRLETSNAKLSPTWPKAEQYRHYRPGQAIGAPLPDEDMRIAGVSLGTSFDAVKASLGQPTSEKRDELTYGGIKFGHSLMQDSRPIVWYMTVSNRDAVTARGIAVGDSLKKVMDIYGRPDFIDFNNRWFYGYLRYNSDNIVGIFFEHNGSKVTKIIISDN
>NC_013520.1|WP_012864987.1|2043882_2044605_-|hypothetical-protein
MGVNAKVDFYNTEIDKLFLVWKLKDASHDINHDADGFIRDGIINPSTWFYSNCRPLFILKEAYNGNGSNDSWDLCEWIRSDLERVSKINTWMTISLWAQGIIHTDVETLHHLPNEDEQKKTGVSYLDKIAIVNLRKSGGQKTSNHAVLKEYVEFDKFELRDEIGFIQPTVIICGGTFRYLSDIFGENLVWVGDDPYINLNNTNILVLDYYHPACRFPKLMKYYGLVGKYQKTLLRRGNML
>NC_013520.1|WP_012864986.1|2043400_2043844_-|hypothetical-protein
MHVVKPLLWLLEPYIVYKAYLWGTRFMAQPYTWEGELDWFAFMLTILLVIDVVALPLVIFYCPGLNPGVRVPDWIRRLGTPIYAVHNWLDSKVGGDTSTPIVWLRKALHSLLLFIYYLVPFYVGGHLVMGLVVALMYDVLVWAHGGV
>NC_013520.1|WP_012864985.1|2042801_2043401_-|DNA-3-methyladenine-glycosylase-I
MTTCEWPTTPLYQDYHDYEWGRPIHDDQHQFEHLCLESLQCGLSWLTILNKRDIIRACFDHFDIDAVAVYGESDIERIMQTEGMLKYRPKIEAIINNATAFKRIQSEFGSFCNYIWGFTNHKTIIYENHPEGHFPTKNGLSTRISKDLKKRGFKFVGPVTIYSHLQASGLINDHGKDCPCFEEINKTADIVRLPVDDEA
>NC_013520.1|WP_012864997.1|2054362_2055133_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MADNVEIMAIELGITADPSIKIVQSIGSVLHGVLMELVGIEYAGQLHETGLRPYSQYIYFDKEKGQYIWRLSAVTAEAVERILRPVLDMPEKIFLKQKRGHIYIQDRTILEETSYEALMAKFWSGEAEYAQAKLRCVTTTSFKVDQQYTIFPEAFRIYRYLLRQWNQFTTFEMMDSEDLLAALESAAFIRDYNLRMGIYGLEGVKIRGFRGEIVMQFKRNLVMQRILSLLTYYSQFTGLGIKTALGMGGVQSEVVQ
>NC_013520.1|WP_012864998.1|2055122_2056298_-|type-III-A-CRISPR-associated-RAMP-protein-Csm5
MSNRIDHAQLSLTIVSPTNIGGPENLTTKDYMYNYDAGEVYLLNNYEWFRFLAHHNKLEEFELYMQDEMIRPNGRTMYDWAKNAIGASQLTKDTLRSAIGSIMKSSIYNKGRKNSLNDITPQIRGANGDVYIPGSSIKGVIDSAIISHMLRNNKAFRSNVQRELRKVLDVYKRKNARSLFKDIFKMVNLAILKHIHVLTNNEGKPFKGILASAFRGISISDAMPMGVIKTEVLKKEDSCVEEDGTHDISVHRECILPNQQFSFTLTLDTAMTKEIGITSIDQVLDILQEDFDATHKLLASKFKKVSPSVFKALDSANAYIGSNTGFIQKTIIMAAFTDDEKTGIDIIRAILDVNFQKAKHDSKDKFMAPRAIKLVKWNGNYYEVGGIHIGR
>NC_013520.1|WP_012864999.1|2056290_2057289_-|type-III-A-CRISPR-associated-RAMP-protein-Csm4
MNYYLYPLRFLTPVHFGDTSEGGNLETISSTLGSDVLFGACCHEISHNTGLLQSFIDSVKEQHIVLSSLFPYCIDNGEYQLYVPTPIMQIDSIELPITSFAETKRVATEQKKIKKIEYIRASQLQNFSQYIESDTSQKHMPIFGTKQAMTQVNMRGEKSRPYYVGSYQFMSNTGLYIIARFTDDTSRELFEAILELLGLSGIGGKRSGGYGKFELADDPIQLESEGIYKDDSALYELLHNNQGKMMCISACVPTRDEVATLKQGSYKLQKRGGFVGSAGSMTQVKRNSYYVVKEGSVCPKALVGQMLTITGDSLPHPVYRNGMGLWIGVDYE
>NC_013520.1|WP_012865000.1|2057298_2057982_-|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MENNDKLKSLRGKLLITGTIKLETGMHIGASNDFAPIGSVDTPFIRDVVSQEPIIPGSSIKGKLRTLLAKSHCEDYIMNDIKEDKEDIKRLFGSVNPVKPARLQFYDLFITDETRQLFDNIETDTYMGEIKFENTINRVDGSANPRQIERVPADTVFTFKVAYNIEREDEVTEDMNILKAGLNLLGIDYLGGHGSRGYGRVNISIDDVKSVGNSTINTQDLLDILRK
>NC_013520.1|WP_012865001.1|2057994_2058507_-|type-III-A-CRISPR-associated-protein-Csm2
MTQGKFNWDIDIVTKAEETIGRLRYNPKCRKTDEVFDVKYAQVRKILSSVVAIKNKLGVEQRKSKSFDKLPENIAMEVRFLKTTFLYQAGRDKDNKYPVKNFIEDSQLVEMVECIGTDVNKFEMFCKYVEALVAFYKYRAVSVIAASNEAWNKNKQYSNQNYNQANGNRR
>NC_013520.1|WP_012865002.1|2058517_2061067_-|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MGKWDALVKGALLHDIGKVVYRANQGTDAHSKRGAAFIEPYFSDMGLKQSITHCLKYHHGKELSTAQLKNDDYAYIVYEADNIAAAVNRRDLEEGENTSTQKFDKELPLQSIFRVFGDKTSTQPLQYYLRGIDVSDHFNYPENDKTIRAPSDKYKALYDVLVQNFQQQPIDKMSVNELLRIYEDTISYMPSSTATDQTNDISLYMHSKITAAVAHSMVHYFEEQGITDYKEYCYQNSKKFREMPAFRLISGDISGIQNFIYTIPSKGALKSLRGRSFYLEILMEQIVDELLDTLQLTRANLIYNGGGHFYVLAPNTTKTCTAIESMEKSINEWFLTVFGTKLYLALGSATATAAELIQSQRTLFRKVSQSVGEAKAKRYSEQHLTDLFNPNSTYNTVLHGERECFICHTSTATLSPYGKDTDAEACPICNGLYHLGEQIVDSRDTVFVLASPNTSDDNESIPKVEVYLNNLSSDADNLKVYLYVVPESSLQKFESSHEILRIYSKNTAKTGHNIFNRIWLADYVARKDNGQVYEFEELAASSGLGEDKGIKRLGVLRADVDNLGAAFTGGFISEGSDKFKYGTLSRYADLSRDLAMFFKVAVNKMAQGDVQGFGRSVTPFTIWANKKVTTRKIHVIYSGGDDVFLVGAWDELLELVIDIREKLAEVTDNKITMSAGLALFSPSYPISQMAAITGLLESVAKDNDGKDSIALFGFETNSNGEERICRHVYKWDDLINNVIEDKLYTLDQLFVIPGINEVQDSKMKLGKGLIYKLMELLQGILNDRALGKHINVARILYLLARLEPKKNNPTYESYKNFVTAIHRWIQSEEDCKALLTACNLIVYYMRDTK
>NC_013520.1|WP_012865003.1|2062883_2065139_-|hypothetical-protein
MRFLTLSTTGIFNDIRPSLFPPIEGKETTTFLLALDYYVPDRCFLEDEQEDVETARERYDLERKRIRAFVKALCNDWGKPIEELRTEVINCLPEFISHGTYNGEPLLSEPRDGYYTIYPMYKSYRGRDMLFPTHQSSKEEAQYIFDHMLRYFLKVFFEPDAFFGYLDGAFHIDTPLSVTTVQQILEDLEREAVPSPLSVSSISNTHTMDEPTIINTEFLLIADAFGAYMVQAMEGDTESEQLAALTEDPFVCEMCCSLHKCFMINNRCFSISIYDECNIWVDKILDAYAIHDYLQILNVYNDEFPSYDDGVIGYEKQYLVGPLLDNLVKDLTREKLLVQLSPKDEQRKDYLNFILTYDETVQSIFEEICEKKIDGRDIYKQQDLATVLTLDVRLCCTFYCMIDACRHAFNRYMYADILPIVDKLDVQLAKVQISATDTWQVEYLVKVSRISQWYRALAYACLGDERIEPILQDLMIMQQQDPVLYKEHIDSIFENLDDPEHAFNTEHLRYALLHYYIETNNQLGYERYIKELYPPILGIDSDYKVQKNILLYGEDGKYCENYSNRDFYLWVKALWAFYLDDIDKEFWNELVEQWEKQDYIPIFYGINDYELCVNYMIKLAVHFGDMQRAEKYKKEFDMALPNKKEPMEDAPSGYTWPFFDCYIIAQVNETLGNIEIAKEHYHKALSMASFGEARWEQYEEQHGGIWKTYKDFGYSGPDLKFEDWIKDSIVTYDTIEEYKKVLDKYLFYMYK
>NC_013520.1|WP_012865004.1|2065239_2065776_-|hypothetical-protein
MFHIVDVDNTLVFTDELNIAGYVHALACVDLEPCKVVPRITREIVQECYPQLTKGEVMHITRLKQDYVERHLEVSQLNESVARVLVTYGSERCALWTVANPERVRMLLRYHKITEYRAIRFSNKTEDDVAHAVQDFCALFGCEPEDLCFHEDNPEVINYLRKLGLTVMAVESVAECGK
>NC_013520.1|WP_012865005.1|2065803_2066751_-|DNA-processing-protein-DprA
MNISPIALKIWAVHNTTSRITTRKSFHDNWKTEDEFLAMMSDITDIDDVVHDLSVAVDDMDWMDGAVCCFDAEFPVINESVPKGDRPYLLFYKGDLSLLRDLNRNVAVIGYTTPNEALIARESKIVEHLVHHGQHIVSGLAKGCDAIGHTVCMDCGGKTIAILPSPLNAISPADHRDMAHQIIEKGGLVISEYYNGPRSRHEAINRYVERDRLQALFAKAVVLIASYEGRDGDSGSRHAMGKAHSYGHLACVMYDETTDGEVLEMKLNRSLLSQQKAKQLVTNPSGVGTTGYSSVMVDDLVSFVNPALEAQQKLF
>NC_013520.1|WP_042466850.1|2066752_2067427_-|amidophosphoribosyltransferase
MEVHMEQLIRRFTLSSNEYLSRDCVGYYRDLYLRFREPGNPDFLNTLKNTLNNYCPSVLKSARQEVYDRVKRDIPDIMKAEKLEEVVVAVVPRAKAFMSPNQLGFRDAVQECVRILQANGYSGITDGIGCIMRHTNTKTTHIHKNLPGFDNCGSEPYVGITNDTCHIDADAVRGKTVILIDDIYTKTVNVDEDCIQALYDAGAARVVFYAVAYTYRRSSYRKGA

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Crispr_ID: NC_013520_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_2

2061238-2061575

TypeIII

Consensus_repeat	Method
AGTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	CRT
GTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	PILER-CR

4 spacers

cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,cas6,csx19,csx10gr5

The CRISPR arrays of NC_013520_2

>merge|NC_013520|2|2061238-2061575|CRT,PILER-CR
AAAAACCGGCCCCAAATGGGGATTATTTAATTTAACTAGAATTAGATGAAGTATCTGTAGCTGATAGCACTAGACTGGTTTCCGTCCCCATCAGGGGATTATTTAATTTAACATTGTAAAGATCAAGAAGGAACTTATTCCATATATTTCAGCAAGTTTCCGTCCCCATCAGGGGATTATTTAATTTAACTAACTTATAATACTCCTAGATTGAATGCTATTAAAGTTTCCGTCCCCATCAGGGGATTATTTAATTTAACAAACCAAGTATTGCAACTCTTATTAAAAAAGATGAGTAAATAAGTTTCCGTCCCCATCAAGGGATTATTTAATTTAAC

>NC_013520|2|2|2061238-2061575|CRT
AAAAACCGGCCCCAAATGGGGATTATTTAATTTAAC	TAGAATTAGATGAAGTATCTGTAGCTGATAGCACTAGACT
GGTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	ATTGTAAAGATCAAGAAGGAACTTATTCCATATATTTCAGCA
AGTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	TAACTTATAATACTCCTAGATTGAATGCTATTAA
AGTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	AAACCAAGTATTGCAACTCTTATTAAAAAAGATGAGTAAATA
AGTTTCCGTCCCCATCAAGGGATTATTTAATTTAAC

>NC_013520|2|2|2061315-2061575|PILER-CR
GTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	ATTGTAAAGATCAAGAAGGAACTTATTCCATATATTTCAGCAA
GTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	TAACTTATAATACTCCTAGATTGAATGCTATTAAA
GTTTCCGTCCCCATCAGGGGATTATTTAATTTAAC	AAACCAAGTATTGCAACTCTTATTAAAAAAGATGAGTAAATAA
GTTTCCGTCCCCATCAAGGGATTATTTAATTTAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	unknown	unknown	gnl\|CDD\|376794
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	unknown	unknown	gnl\|CDD\|236821
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	unknown	unknown	gnl\|CDD\|271357
NC_013520.1\|WP_012864993.1\|2048470_2049730_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865003.1\|2062883_2065139_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_009351567.1\|2053689_2053854_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	unknown	unknown	gnl\|CDD\|206754
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	gnl\|CDD\|187793
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|337605
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	gnl\|CDD\|380071
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|171440
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown

Protein	Cas_name	Cas_description	E-value	Identity	Coverage
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	2.8e-16	54.9	0.0
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	1.7e-65	215.5	0.2
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	2e-77	255.7	0.0
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	1.1e-16	56.2	0.9
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	7.7e-40	131.3	0.0
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	7.4e-51	167.2	0.1
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	6.1e-20	66.4	1.4
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	1.1e-17	59.4	0.2
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	1.6e-34	114.2	0.1
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	5.9e-34	112.8	0.0
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	5.1e-217	717.1	1.0
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	3.7e-12	40.8	0.6

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	gnl\|CDD\|376794	pfam02481, DNA_processg_A, DNA recombination-mediator protein A. The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In H. pylori, dprA is required for natural chromosomal and plasmid transformation. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyze the homology-dependent formation of joint molecules. While the E.coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation.	4.2591e-42
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	gnl\|CDD\|271357	cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain. This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease.	2.15079e-92
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	1.45925e-11
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	gnl\|CDD\|236821	PRK11017, codB, cytosine permease; Provisional.	1.6067e-80
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	gnl\|CDD\|206754	cd06223, PRTases_typeI, Phosphoribosyl transferase (PRT)-type I domain. Phosphoribosyl transferase (PRT) domain. The type I PRTases are identified by a conserved PRPP binding motif which features two adjacent acidic residues surrounded by one or more hydrophobic residue. PRTases catalyze the displacement of the alpha-1'-pyrophosphate of 5-phosphoribosyl-alpha1-pyrophosphate (PRPP) by a nitrogen-containing nucleophile. The reaction products are an alpha-1 substituted ribose-5'-phosphate and a free pyrophosphate (PP). PRPP, an activated form of ribose-5-phosphate, is a key metabolite connecting nucleotide synthesis and salvage pathways. The type I PRTase family includes a range of diverse phosphoribosyl transferase enzymes and regulatory proteins of the nucleotide synthesis and salvage pathways, including adenine phosphoribosyltransferase EC:2.4.2.7., hypoxanthine-guanine-xanthine phosphoribosyltransferase, hypoxanthine phosphoribosyltransferase EC:2.4.2.8., ribose-phosphate pyrophosphokinase EC:2.7.6.1., amidophosphoribosyltransferase EC:2.4.2.14., orotate phosphoribosyltransferase EC:2.4.2.10., uracil phosphoribosyltransferase EC:2.4.2.9., and xanthine-guanine phosphoribosyltransferase EC:2.4.2.22.	0.00471683
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	gnl\|CDD\|187793	cd09662, Csm5_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	2.13113e-14
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|337605	pfam10040, CRISPR_Cas6, CRISPR-associated endoribonuclease Cas6. Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily. It is among the most widely distributed Cas proteins and is found in both bacteria and archaea. Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes.	0.000700525
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	3.99136e-70
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	gnl\|CDD\|380071	pfam17953, Csm4_C, CRISPR Csm4 C-terminal domain. Clustered, regularly interspaced, short palindromic repeat (CRISPR) loci play a pivotal role in the prokaryotic host defense system against invading genetic materials. The CRISPR loci are transcribed to produce CRISPR RNAs (crRNAs), which form interference complexes with CRISPR-associated (Cas) proteins to target the invading nucleic acid for degradation. The interference complex of the type III-A CRISPR-Cas system is composed of five Cas proteins (Csm1-Csm5) and a crRNA, and targets invading DNA. This entry represents the C-terminal domain found in Csm4. Csm4 structurally resembles Cmr3, a component of the type III-B CRISPR-Cas interference complex. Studies indicate that Csm3-Csm4 complex binds single-stranded RNA in a non-sequence-specific manner. Structural analysis show, Csm3 and Csm4 have one and two ferredoxin-like folds (also known as an RRM-like fold), respectively. The long beta-hairpin inserted into the C-terminal ferredoxin-like fold of Csm4, is well-conserved in the Cmr3 structure. The corresponding beta-hairpin of Cmr3 binds the D1 domain of Cmr2, as observed in the Cmr2-Cmr3 complex structure. Furthermore, it is suggested that the hairpin of Csm4 is responsible for the interaction with Csm1 (ortholog of Cmr2).	1.09285e-31
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	gnl\|CDD\|171440	PRK12365, PRK12365, ribonucleoside-diphosphate reductase subunit alpha.	0.00322333
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	0

>NC_013520.1|WP_012865002.1|2058517_2061067_-|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MGKWDALVKGALLHDIGKVVYRANQGTDAHSKRGAAFIEPYFSDMGLKQSITHCLKYHHGKELSTAQLKNDDYAYIVYEADNIAAAVNRRDLEEGENTSTQKFDKELPLQSIFRVFGDKTSTQPLQYYLRGIDVSDHFNYPENDKTIRAPSDKYKALYDVLVQNFQQQPIDKMSVNELLRIYEDTISYMPSSTATDQTNDISLYMHSKITAAVAHSMVHYFEEQGITDYKEYCYQNSKKFREMPAFRLISGDISGIQNFIYTIPSKGALKSLRGRSFYLEILMEQIVDELLDTLQLTRANLIYNGGGHFYVLAPNTTKTCTAIESMEKSINEWFLTVFGTKLYLALGSATATAAELIQSQRTLFRKVSQSVGEAKAKRYSEQHLTDLFNPNSTYNTVLHGERECFICHTSTATLSPYGKDTDAEACPICNGLYHLGEQIVDSRDTVFVLASPNTSDDNESIPKVEVYLNNLSSDADNLKVYLYVVPESSLQKFESSHEILRIYSKNTAKTGHNIFNRIWLADYVARKDNGQVYEFEELAASSGLGEDKGIKRLGVLRADVDNLGAAFTGGFISEGSDKFKYGTLSRYADLSRDLAMFFKVAVNKMAQGDVQGFGRSVTPFTIWANKKVTTRKIHVIYSGGDDVFLVGAWDELLELVIDIREKLAEVTDNKITMSAGLALFSPSYPISQMAAITGLLESVAKDNDGKDSIALFGFETNSNGEERICRHVYKWDDLINNVIEDKLYTLDQLFVIPGINEVQDSKMKLGKGLIYKLMELLQGILNDRALGKHINVARILYLLARLEPKKNNPTYESYKNFVTAIHRWIQSEEDCKALLTACNLIVYYMRDTK
>NC_013520.1|WP_012865001.1|2057994_2058507_-|type-III-A-CRISPR-associated-protein-Csm2
MTQGKFNWDIDIVTKAEETIGRLRYNPKCRKTDEVFDVKYAQVRKILSSVVAIKNKLGVEQRKSKSFDKLPENIAMEVRFLKTTFLYQAGRDKDNKYPVKNFIEDSQLVEMVECIGTDVNKFEMFCKYVEALVAFYKYRAVSVIAASNEAWNKNKQYSNQNYNQANGNRR
>NC_013520.1|WP_012865000.1|2057298_2057982_-|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MENNDKLKSLRGKLLITGTIKLETGMHIGASNDFAPIGSVDTPFIRDVVSQEPIIPGSSIKGKLRTLLAKSHCEDYIMNDIKEDKEDIKRLFGSVNPVKPARLQFYDLFITDETRQLFDNIETDTYMGEIKFENTINRVDGSANPRQIERVPADTVFTFKVAYNIEREDEVTEDMNILKAGLNLLGIDYLGGHGSRGYGRVNISIDDVKSVGNSTINTQDLLDILRK
>NC_013520.1|WP_012864999.1|2056290_2057289_-|type-III-A-CRISPR-associated-RAMP-protein-Csm4
MNYYLYPLRFLTPVHFGDTSEGGNLETISSTLGSDVLFGACCHEISHNTGLLQSFIDSVKEQHIVLSSLFPYCIDNGEYQLYVPTPIMQIDSIELPITSFAETKRVATEQKKIKKIEYIRASQLQNFSQYIESDTSQKHMPIFGTKQAMTQVNMRGEKSRPYYVGSYQFMSNTGLYIIARFTDDTSRELFEAILELLGLSGIGGKRSGGYGKFELADDPIQLESEGIYKDDSALYELLHNNQGKMMCISACVPTRDEVATLKQGSYKLQKRGGFVGSAGSMTQVKRNSYYVVKEGSVCPKALVGQMLTITGDSLPHPVYRNGMGLWIGVDYE
>NC_013520.1|WP_012864998.1|2055122_2056298_-|type-III-A-CRISPR-associated-RAMP-protein-Csm5
MSNRIDHAQLSLTIVSPTNIGGPENLTTKDYMYNYDAGEVYLLNNYEWFRFLAHHNKLEEFELYMQDEMIRPNGRTMYDWAKNAIGASQLTKDTLRSAIGSIMKSSIYNKGRKNSLNDITPQIRGANGDVYIPGSSIKGVIDSAIISHMLRNNKAFRSNVQRELRKVLDVYKRKNARSLFKDIFKMVNLAILKHIHVLTNNEGKPFKGILASAFRGISISDAMPMGVIKTEVLKKEDSCVEEDGTHDISVHRECILPNQQFSFTLTLDTAMTKEIGITSIDQVLDILQEDFDATHKLLASKFKKVSPSVFKALDSANAYIGSNTGFIQKTIIMAAFTDDEKTGIDIIRAILDVNFQKAKHDSKDKFMAPRAIKLVKWNGNYYEVGGIHIGR
>NC_013520.1|WP_012864997.1|2054362_2055133_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MADNVEIMAIELGITADPSIKIVQSIGSVLHGVLMELVGIEYAGQLHETGLRPYSQYIYFDKEKGQYIWRLSAVTAEAVERILRPVLDMPEKIFLKQKRGHIYIQDRTILEETSYEALMAKFWSGEAEYAQAKLRCVTTTSFKVDQQYTIFPEAFRIYRYLLRQWNQFTTFEMMDSEDLLAALESAAFIRDYNLRMGIYGLEGVKIRGFRGEIVMQFKRNLVMQRILSLLTYYSQFTGLGIKTALGMGGVQSEVVQ
>NC_013520.1|WP_009351567.1|2053689_2053854_+|hypothetical-protein
MAIHKLSAILGTIIMGIGSFITCLATTESTITLGNGMLVVSIIMMGFGYSKWQP
>NC_013520.1|WP_012864995.1|2052379_2053684_+|cytosine-permease
MSKEKLEFVEPVDTNTDNEYSREPVPLGARKSCFSLTIVWTGFVFLVTSMMAGGGLAAGLTFNELLLAMILGNIFLCIIAGLVSVIAYKTGLTFALLTRYSFGQEGSRIASLFVPIVNLGWYTIQAALYGHFIAQVFNLSYTGEVIAMMLSAVIMGIFAVLGIKSLAVFGYIAIPSIVFLSLGTAARSVQTIGGWQELFSYVPLQPIDLLSGITIVIGTWILSTATCIADIMRYGKSKKDVITASTIGLLGGNTLMISCGAIAGVAMNDGDLINVLLSFGLVFPSLLLLTTNIFTTNGANLYSTSLNLANSFKLNRNIMLAVLIAISALATMTQPYKIDSLFVFLSTLGIIVPPLCGIILADFYLVHRGKYIDYNKATFKKWNLVPWITWAIALVCVKFIPFGLASLNGIVIGALLYAVITYIVKPNVISESKG
>NC_013520.1|WP_012864994.1|2050222_2051641_+|sodium:solute-symporter-family-protein
MDSLTIIWVIVCAYLLLNLLVGVYCHIRVKDSTDYLLAGRRIGVLMTAGTLAATEIGGGSTVGVAAKAYGSWGLSAGWYVVSAGIGVILVAFIAPLLRRAMATTVPEIIGRRFGASSHLITSILSMLATITLAGVQITATATIISVLTGLSTELAILICGAVLVIYTMSGGMWSVTMTDVIHFFVLVGGFSLAVPFVLHNVGGWESVVAKLPPEQLGFTKVGWKTIIGLIIMYFMTFSTGQESVQRYFAAKDERTAVLGSIICGIIMALFAFVPAVLGLVALAEFPNIEANNAVATVALNLMPPVMAGFVMAAVVSATLSSGAGDLLGAATVFTKDIVEHHFGKSLTDAQLTNYSRLCVLFLGIIAIIISLVSKAIIPMLVFAFTMRSAGPFAAFLLGLTWKNATAGAGIWSIVLGSIAGVYWEFVGNPYGIMSIIFGSIVSLIVFVAVVFIERSMGKPPAPPAIPDDVKEI
>NC_013520.1|WP_012864993.1|2048470_2049730_-|hypothetical-protein
MLRKSLIMMALATAFTMNISAVQIEVQKGQPPMPGADASIPTNAYENYRHINKVTEQEAELYSQFAKSNPKNPPSTPDKLNLEHPGFSKALELADYSQSTVVLIHEGDKNIRLSVPNVSFRGDVVEIPSGKEGSFFAVRSLSAFLVVGPPHGKALDTYSESKGKYMYPGLRNTSWKFMSNNARVMYTEFTLNDTKTAYGITYGGWVNTEDPYQDQAPEVVMSNYIIPSIESLAGLDSYSQIEHWGNFHYRIPKTAKLVSEAVENERHEVRTYEDTGVKIRVIRSAIMSKETDNTLIKVPIIYYLHKYNDLETPTQYAVVWNNGIPGSLVDAYKPNRESYLRHVMKDSVYYYSYRINYDESKTSYTHKQLRNMIEYVGFDDAARLRKEPQWREKGSYKERLENSPVFIPWYMEWVKLLTQ
>NC_013520.1|WP_012865003.1|2062883_2065139_-|hypothetical-protein
MRFLTLSTTGIFNDIRPSLFPPIEGKETTTFLLALDYYVPDRCFLEDEQEDVETARERYDLERKRIRAFVKALCNDWGKPIEELRTEVINCLPEFISHGTYNGEPLLSEPRDGYYTIYPMYKSYRGRDMLFPTHQSSKEEAQYIFDHMLRYFLKVFFEPDAFFGYLDGAFHIDTPLSVTTVQQILEDLEREAVPSPLSVSSISNTHTMDEPTIINTEFLLIADAFGAYMVQAMEGDTESEQLAALTEDPFVCEMCCSLHKCFMINNRCFSISIYDECNIWVDKILDAYAIHDYLQILNVYNDEFPSYDDGVIGYEKQYLVGPLLDNLVKDLTREKLLVQLSPKDEQRKDYLNFILTYDETVQSIFEEICEKKIDGRDIYKQQDLATVLTLDVRLCCTFYCMIDACRHAFNRYMYADILPIVDKLDVQLAKVQISATDTWQVEYLVKVSRISQWYRALAYACLGDERIEPILQDLMIMQQQDPVLYKEHIDSIFENLDDPEHAFNTEHLRYALLHYYIETNNQLGYERYIKELYPPILGIDSDYKVQKNILLYGEDGKYCENYSNRDFYLWVKALWAFYLDDIDKEFWNELVEQWEKQDYIPIFYGINDYELCVNYMIKLAVHFGDMQRAEKYKKEFDMALPNKKEPMEDAPSGYTWPFFDCYIIAQVNETLGNIEIAKEHYHKALSMASFGEARWEQYEEQHGGIWKTYKDFGYSGPDLKFEDWIKDSIVTYDTIEEYKKVLDKYLFYMYK
>NC_013520.1|WP_012865004.1|2065239_2065776_-|hypothetical-protein
MFHIVDVDNTLVFTDELNIAGYVHALACVDLEPCKVVPRITREIVQECYPQLTKGEVMHITRLKQDYVERHLEVSQLNESVARVLVTYGSERCALWTVANPERVRMLLRYHKITEYRAIRFSNKTEDDVAHAVQDFCALFGCEPEDLCFHEDNPEVINYLRKLGLTVMAVESVAECGK
>NC_013520.1|WP_012865005.1|2065803_2066751_-|DNA-processing-protein-DprA
MNISPIALKIWAVHNTTSRITTRKSFHDNWKTEDEFLAMMSDITDIDDVVHDLSVAVDDMDWMDGAVCCFDAEFPVINESVPKGDRPYLLFYKGDLSLLRDLNRNVAVIGYTTPNEALIARESKIVEHLVHHGQHIVSGLAKGCDAIGHTVCMDCGGKTIAILPSPLNAISPADHRDMAHQIIEKGGLVISEYYNGPRSRHEAINRYVERDRLQALFAKAVVLIASYEGRDGDSGSRHAMGKAHSYGHLACVMYDETTDGEVLEMKLNRSLLSQQKAKQLVTNPSGVGTTGYSSVMVDDLVSFVNPALEAQQKLF
>NC_013520.1|WP_042466850.1|2066752_2067427_-|amidophosphoribosyltransferase
MEVHMEQLIRRFTLSSNEYLSRDCVGYYRDLYLRFREPGNPDFLNTLKNTLNNYCPSVLKSARQEVYDRVKRDIPDIMKAEKLEEVVVAVVPRAKAFMSPNQLGFRDAVQECVRILQANGYSGITDGIGCIMRHTNTKTTHIHKNLPGFDNCGSEPYVGITNDTCHIDADAVRGKTVILIDDIYTKTVNVDEDCIQALYDAGAARVVFYAVAYTYRRSSYRKGA
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE

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Crispr_ID: NC_013520_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_3

2061823-2062450

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	CRISPRCasFinder
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	CRT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	PILER-CR

8 spacers

cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,cas6,csx19,csx10gr5

The CRISPR arrays of NC_013520_3

>merge|NC_013520|3|2061823-2062450|CRISPRCasFinder,CRT,PILER-CR
ATTAATATACTATAAACGTTAATTGTTGTTGCAACCTAATCACTGATACTTGTGGTATGCTTGAAGCTTACTCGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACAGGTGCAGATAGAAAATATCGTCGCCCTTGGAAGTATTATGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACTCTTCAATTTCAATACTGGAATTGATTTCTACTTCACGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACTGTAAAATCTTTACAAGATACCACTAAGACAGCGGTAAAGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACCGACAATATTGCAATGGATCAAGTTCGTAACGATGCAATGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACTGTCAAGAGAGGAGAATAATATGAACAGACAAAAAAAGAATGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACTGAAGAGCAGTGAAAGTGTACAATCTGTTATGAAAGAATGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACTTATTCAAAGTAATCGTTCTGTACAATCTATTAGTAATTAGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC

>NC_013520|3|2|2061823-2062450|CRISPRCasFinder
ATTAATATACTATAAACGTTAATTGTTGTTGCAAC	CTAATCACTGATACTTGTGGTATGCTTGAAGCTTACTC
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	AGGTGCAGATAGAAAATATCGTCGCCCTTGGAAGTATTAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TCTTCAATTTCAATACTGGAATTGATTTCTACTTCAC
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTAAAATCTTTACAAGATACCACTAAGACAGCGGTAAA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	CGACAATATTGCAATGGATCAAGTTCGTAACGATGCAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTCAAGAGAGGAGAATAATATGAACAGACAAAAAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGAAGAGCAGTGAAAGTGTACAATCTGTTATGAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TTATTCAAAGTAATCGTTCTGTACAATCTATTAGTAATTA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC

>NC_013520|3|3|2061823-2062450|CRT
ATTAATATACTATAAACGTTAATTGTTGTTGCAAC	CTAATCACTGATACTTGTGGTATGCTTGAAGCTTACTC
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	AGGTGCAGATAGAAAATATCGTCGCCCTTGGAAGTATTAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TCTTCAATTTCAATACTGGAATTGATTTCTACTTCAC
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTAAAATCTTTACAAGATACCACTAAGACAGCGGTAAA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	CGACAATATTGCAATGGATCAAGTTCGTAACGATGCAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTCAAGAGAGGAGAATAATATGAACAGACAAAAAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGAAGAGCAGTGAAAGTGTACAATCTGTTATGAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TTATTCAAAGTAATCGTTCTGTACAATCTATTAGTAATTA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC

>NC_013520|3|3|2061896-2062450|PILER-CR
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	AGGTGCAGATAGAAAATATCGTCGCCCTTGGAAGTATTAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TCTTCAATTTCAATACTGGAATTGATTTCTACTTCAC
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTAAAATCTTTACAAGATACCACTAAGACAGCGGTAAA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	CGACAATATTGCAATGGATCAAGTTCGTAACGATGCAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGTCAAGAGAGGAGAATAATATGAACAGACAAAAAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TGAAGAGCAGTGAAAGTGTACAATCTGTTATGAAAGAAT
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC	TTATTCAAAGTAATCGTTCTGTACAATCTATTAGTAATTA
GTTTCAATACCGTAAACGGTAAGTGCTGTTGCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	unknown	unknown	gnl\|CDD\|376794
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	unknown	unknown	gnl\|CDD\|236821
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	unknown	unknown	gnl\|CDD\|271357
NC_013520.1\|WP_012864993.1\|2048470_2049730_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865003.1\|2062883_2065139_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_009351567.1\|2053689_2053854_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	unknown	unknown	gnl\|CDD\|206754
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	gnl\|CDD\|187793
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|337605
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	gnl\|CDD\|380071
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|171440
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown

Protein	Cas_name	Cas_description	E-value	Identity	Coverage
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	2.8e-16	54.9	0.0
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	1.7e-65	215.5	0.2
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	2e-77	255.7	0.0
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	1.1e-16	56.2	0.9
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	7.7e-40	131.3	0.0
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	7.4e-51	167.2	0.1
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	6.1e-20	66.4	1.4
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	1.1e-17	59.4	0.2
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	1.6e-34	114.2	0.1
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	5.9e-34	112.8	0.0
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	5.1e-217	717.1	1.0
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	3.7e-12	40.8	0.6

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865005.1\|2065803_2066751_-\|DNA-processing-protein-DprA	gnl\|CDD\|376794	pfam02481, DNA_processg_A, DNA recombination-mediator protein A. The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In H. pylori, dprA is required for natural chromosomal and plasmid transformation. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyze the homology-dependent formation of joint molecules. While the E.coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation.	4.2591e-42
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012864994.1\|2050222_2051641_+\|sodium:solute-symporter-family-protein	gnl\|CDD\|271357	cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain. This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease.	2.15079e-92
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865001.1\|2057994_2058507_-\|type-III-A-CRISPR-associated-protein-Csm2	gnl\|CDD\|367635	pfam03750, Csm2_III-A, Csm2 Type III-A. Clusters of short DNA repeats with non-homologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognisable features. This family is known as CRISPR (short for Clustered Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-associated) proteins. This entry represents Csm2 Type III-A, a family of Cas proteins also known as TM1810/Csm2.	1.45925e-11
NC_013520.1\|WP_012864995.1\|2052379_2053684_+\|cytosine-permease	gnl\|CDD\|236821	PRK11017, codB, cytosine permease; Provisional.	1.6067e-80
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466850.1\|2066752_2067427_-\|amidophosphoribosyltransferase	gnl\|CDD\|206754	cd06223, PRTases_typeI, Phosphoribosyl transferase (PRT)-type I domain. Phosphoribosyl transferase (PRT) domain. The type I PRTases are identified by a conserved PRPP binding motif which features two adjacent acidic residues surrounded by one or more hydrophobic residue. PRTases catalyze the displacement of the alpha-1'-pyrophosphate of 5-phosphoribosyl-alpha1-pyrophosphate (PRPP) by a nitrogen-containing nucleophile. The reaction products are an alpha-1 substituted ribose-5'-phosphate and a free pyrophosphate (PP). PRPP, an activated form of ribose-5-phosphate, is a key metabolite connecting nucleotide synthesis and salvage pathways. The type I PRTase family includes a range of diverse phosphoribosyl transferase enzymes and regulatory proteins of the nucleotide synthesis and salvage pathways, including adenine phosphoribosyltransferase EC:2.4.2.7., hypoxanthine-guanine-xanthine phosphoribosyltransferase, hypoxanthine phosphoribosyltransferase EC:2.4.2.8., ribose-phosphate pyrophosphokinase EC:2.7.6.1., amidophosphoribosyltransferase EC:2.4.2.14., orotate phosphoribosyltransferase EC:2.4.2.10., uracil phosphoribosyltransferase EC:2.4.2.9., and xanthine-guanine phosphoribosyltransferase EC:2.4.2.22.	0.00471683
NC_013520.1\|WP_012864998.1\|2055122_2056298_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	gnl\|CDD\|187793	cd09662, Csm5_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	2.13113e-14
NC_013520.1\|WP_012864997.1\|2054362_2055133_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|337605	pfam10040, CRISPR_Cas6, CRISPR-associated endoribonuclease Cas6. Cas6 is a member of the RAMP (repeat-associated mysterious protein) superfamily. It is among the most widely distributed Cas proteins and is found in both bacteria and archaea. Cas6 functions in the generation of CRISPR-derived guide RNAs for invader defense in prokaryotes.	0.000700525
NC_013520.1\|WP_012865000.1\|2057298_2057982_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein.	3.99136e-70
NC_013520.1\|WP_012864999.1\|2056290_2057289_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	gnl\|CDD\|380071	pfam17953, Csm4_C, CRISPR Csm4 C-terminal domain. Clustered, regularly interspaced, short palindromic repeat (CRISPR) loci play a pivotal role in the prokaryotic host defense system against invading genetic materials. The CRISPR loci are transcribed to produce CRISPR RNAs (crRNAs), which form interference complexes with CRISPR-associated (Cas) proteins to target the invading nucleic acid for degradation. The interference complex of the type III-A CRISPR-Cas system is composed of five Cas proteins (Csm1-Csm5) and a crRNA, and targets invading DNA. This entry represents the C-terminal domain found in Csm4. Csm4 structurally resembles Cmr3, a component of the type III-B CRISPR-Cas interference complex. Studies indicate that Csm3-Csm4 complex binds single-stranded RNA in a non-sequence-specific manner. Structural analysis show, Csm3 and Csm4 have one and two ferredoxin-like folds (also known as an RRM-like fold), respectively. The long beta-hairpin inserted into the C-terminal ferredoxin-like fold of Csm4, is well-conserved in the Cmr3 structure. The corresponding beta-hairpin of Cmr3 binds the D1 domain of Cmr2, as observed in the Cmr2-Cmr3 complex structure. Furthermore, it is suggested that the hairpin of Csm4 is responsible for the interaction with Csm1 (ortholog of Cmr2).	1.09285e-31
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_012865004.1\|2065239_2065776_-\|hypothetical-protein	gnl\|CDD\|171440	PRK12365, PRK12365, ribonucleoside-diphosphate reductase subunit alpha.	0.00322333
NC_013520.1\|WP_012865002.1\|2058517_2061067_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	0

>NC_013520.1|WP_012865002.1|2058517_2061067_-|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MGKWDALVKGALLHDIGKVVYRANQGTDAHSKRGAAFIEPYFSDMGLKQSITHCLKYHHGKELSTAQLKNDDYAYIVYEADNIAAAVNRRDLEEGENTSTQKFDKELPLQSIFRVFGDKTSTQPLQYYLRGIDVSDHFNYPENDKTIRAPSDKYKALYDVLVQNFQQQPIDKMSVNELLRIYEDTISYMPSSTATDQTNDISLYMHSKITAAVAHSMVHYFEEQGITDYKEYCYQNSKKFREMPAFRLISGDISGIQNFIYTIPSKGALKSLRGRSFYLEILMEQIVDELLDTLQLTRANLIYNGGGHFYVLAPNTTKTCTAIESMEKSINEWFLTVFGTKLYLALGSATATAAELIQSQRTLFRKVSQSVGEAKAKRYSEQHLTDLFNPNSTYNTVLHGERECFICHTSTATLSPYGKDTDAEACPICNGLYHLGEQIVDSRDTVFVLASPNTSDDNESIPKVEVYLNNLSSDADNLKVYLYVVPESSLQKFESSHEILRIYSKNTAKTGHNIFNRIWLADYVARKDNGQVYEFEELAASSGLGEDKGIKRLGVLRADVDNLGAAFTGGFISEGSDKFKYGTLSRYADLSRDLAMFFKVAVNKMAQGDVQGFGRSVTPFTIWANKKVTTRKIHVIYSGGDDVFLVGAWDELLELVIDIREKLAEVTDNKITMSAGLALFSPSYPISQMAAITGLLESVAKDNDGKDSIALFGFETNSNGEERICRHVYKWDDLINNVIEDKLYTLDQLFVIPGINEVQDSKMKLGKGLIYKLMELLQGILNDRALGKHINVARILYLLARLEPKKNNPTYESYKNFVTAIHRWIQSEEDCKALLTACNLIVYYMRDTK
>NC_013520.1|WP_012865001.1|2057994_2058507_-|type-III-A-CRISPR-associated-protein-Csm2
MTQGKFNWDIDIVTKAEETIGRLRYNPKCRKTDEVFDVKYAQVRKILSSVVAIKNKLGVEQRKSKSFDKLPENIAMEVRFLKTTFLYQAGRDKDNKYPVKNFIEDSQLVEMVECIGTDVNKFEMFCKYVEALVAFYKYRAVSVIAASNEAWNKNKQYSNQNYNQANGNRR
>NC_013520.1|WP_012865000.1|2057298_2057982_-|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MENNDKLKSLRGKLLITGTIKLETGMHIGASNDFAPIGSVDTPFIRDVVSQEPIIPGSSIKGKLRTLLAKSHCEDYIMNDIKEDKEDIKRLFGSVNPVKPARLQFYDLFITDETRQLFDNIETDTYMGEIKFENTINRVDGSANPRQIERVPADTVFTFKVAYNIEREDEVTEDMNILKAGLNLLGIDYLGGHGSRGYGRVNISIDDVKSVGNSTINTQDLLDILRK
>NC_013520.1|WP_012864999.1|2056290_2057289_-|type-III-A-CRISPR-associated-RAMP-protein-Csm4
MNYYLYPLRFLTPVHFGDTSEGGNLETISSTLGSDVLFGACCHEISHNTGLLQSFIDSVKEQHIVLSSLFPYCIDNGEYQLYVPTPIMQIDSIELPITSFAETKRVATEQKKIKKIEYIRASQLQNFSQYIESDTSQKHMPIFGTKQAMTQVNMRGEKSRPYYVGSYQFMSNTGLYIIARFTDDTSRELFEAILELLGLSGIGGKRSGGYGKFELADDPIQLESEGIYKDDSALYELLHNNQGKMMCISACVPTRDEVATLKQGSYKLQKRGGFVGSAGSMTQVKRNSYYVVKEGSVCPKALVGQMLTITGDSLPHPVYRNGMGLWIGVDYE
>NC_013520.1|WP_012864998.1|2055122_2056298_-|type-III-A-CRISPR-associated-RAMP-protein-Csm5
MSNRIDHAQLSLTIVSPTNIGGPENLTTKDYMYNYDAGEVYLLNNYEWFRFLAHHNKLEEFELYMQDEMIRPNGRTMYDWAKNAIGASQLTKDTLRSAIGSIMKSSIYNKGRKNSLNDITPQIRGANGDVYIPGSSIKGVIDSAIISHMLRNNKAFRSNVQRELRKVLDVYKRKNARSLFKDIFKMVNLAILKHIHVLTNNEGKPFKGILASAFRGISISDAMPMGVIKTEVLKKEDSCVEEDGTHDISVHRECILPNQQFSFTLTLDTAMTKEIGITSIDQVLDILQEDFDATHKLLASKFKKVSPSVFKALDSANAYIGSNTGFIQKTIIMAAFTDDEKTGIDIIRAILDVNFQKAKHDSKDKFMAPRAIKLVKWNGNYYEVGGIHIGR
>NC_013520.1|WP_012864997.1|2054362_2055133_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MADNVEIMAIELGITADPSIKIVQSIGSVLHGVLMELVGIEYAGQLHETGLRPYSQYIYFDKEKGQYIWRLSAVTAEAVERILRPVLDMPEKIFLKQKRGHIYIQDRTILEETSYEALMAKFWSGEAEYAQAKLRCVTTTSFKVDQQYTIFPEAFRIYRYLLRQWNQFTTFEMMDSEDLLAALESAAFIRDYNLRMGIYGLEGVKIRGFRGEIVMQFKRNLVMQRILSLLTYYSQFTGLGIKTALGMGGVQSEVVQ
>NC_013520.1|WP_009351567.1|2053689_2053854_+|hypothetical-protein
MAIHKLSAILGTIIMGIGSFITCLATTESTITLGNGMLVVSIIMMGFGYSKWQP
>NC_013520.1|WP_012864995.1|2052379_2053684_+|cytosine-permease
MSKEKLEFVEPVDTNTDNEYSREPVPLGARKSCFSLTIVWTGFVFLVTSMMAGGGLAAGLTFNELLLAMILGNIFLCIIAGLVSVIAYKTGLTFALLTRYSFGQEGSRIASLFVPIVNLGWYTIQAALYGHFIAQVFNLSYTGEVIAMMLSAVIMGIFAVLGIKSLAVFGYIAIPSIVFLSLGTAARSVQTIGGWQELFSYVPLQPIDLLSGITIVIGTWILSTATCIADIMRYGKSKKDVITASTIGLLGGNTLMISCGAIAGVAMNDGDLINVLLSFGLVFPSLLLLTTNIFTTNGANLYSTSLNLANSFKLNRNIMLAVLIAISALATMTQPYKIDSLFVFLSTLGIIVPPLCGIILADFYLVHRGKYIDYNKATFKKWNLVPWITWAIALVCVKFIPFGLASLNGIVIGALLYAVITYIVKPNVISESKG
>NC_013520.1|WP_012864994.1|2050222_2051641_+|sodium:solute-symporter-family-protein
MDSLTIIWVIVCAYLLLNLLVGVYCHIRVKDSTDYLLAGRRIGVLMTAGTLAATEIGGGSTVGVAAKAYGSWGLSAGWYVVSAGIGVILVAFIAPLLRRAMATTVPEIIGRRFGASSHLITSILSMLATITLAGVQITATATIISVLTGLSTELAILICGAVLVIYTMSGGMWSVTMTDVIHFFVLVGGFSLAVPFVLHNVGGWESVVAKLPPEQLGFTKVGWKTIIGLIIMYFMTFSTGQESVQRYFAAKDERTAVLGSIICGIIMALFAFVPAVLGLVALAEFPNIEANNAVATVALNLMPPVMAGFVMAAVVSATLSSGAGDLLGAATVFTKDIVEHHFGKSLTDAQLTNYSRLCVLFLGIIAIIISLVSKAIIPMLVFAFTMRSAGPFAAFLLGLTWKNATAGAGIWSIVLGSIAGVYWEFVGNPYGIMSIIFGSIVSLIVFVAVVFIERSMGKPPAPPAIPDDVKEI
>NC_013520.1|WP_012864993.1|2048470_2049730_-|hypothetical-protein
MLRKSLIMMALATAFTMNISAVQIEVQKGQPPMPGADASIPTNAYENYRHINKVTEQEAELYSQFAKSNPKNPPSTPDKLNLEHPGFSKALELADYSQSTVVLIHEGDKNIRLSVPNVSFRGDVVEIPSGKEGSFFAVRSLSAFLVVGPPHGKALDTYSESKGKYMYPGLRNTSWKFMSNNARVMYTEFTLNDTKTAYGITYGGWVNTEDPYQDQAPEVVMSNYIIPSIESLAGLDSYSQIEHWGNFHYRIPKTAKLVSEAVENERHEVRTYEDTGVKIRVIRSAIMSKETDNTLIKVPIIYYLHKYNDLETPTQYAVVWNNGIPGSLVDAYKPNRESYLRHVMKDSVYYYSYRINYDESKTSYTHKQLRNMIEYVGFDDAARLRKEPQWREKGSYKERLENSPVFIPWYMEWVKLLTQ
>NC_013520.1|WP_012865003.1|2062883_2065139_-|hypothetical-protein
MRFLTLSTTGIFNDIRPSLFPPIEGKETTTFLLALDYYVPDRCFLEDEQEDVETARERYDLERKRIRAFVKALCNDWGKPIEELRTEVINCLPEFISHGTYNGEPLLSEPRDGYYTIYPMYKSYRGRDMLFPTHQSSKEEAQYIFDHMLRYFLKVFFEPDAFFGYLDGAFHIDTPLSVTTVQQILEDLEREAVPSPLSVSSISNTHTMDEPTIINTEFLLIADAFGAYMVQAMEGDTESEQLAALTEDPFVCEMCCSLHKCFMINNRCFSISIYDECNIWVDKILDAYAIHDYLQILNVYNDEFPSYDDGVIGYEKQYLVGPLLDNLVKDLTREKLLVQLSPKDEQRKDYLNFILTYDETVQSIFEEICEKKIDGRDIYKQQDLATVLTLDVRLCCTFYCMIDACRHAFNRYMYADILPIVDKLDVQLAKVQISATDTWQVEYLVKVSRISQWYRALAYACLGDERIEPILQDLMIMQQQDPVLYKEHIDSIFENLDDPEHAFNTEHLRYALLHYYIETNNQLGYERYIKELYPPILGIDSDYKVQKNILLYGEDGKYCENYSNRDFYLWVKALWAFYLDDIDKEFWNELVEQWEKQDYIPIFYGINDYELCVNYMIKLAVHFGDMQRAEKYKKEFDMALPNKKEPMEDAPSGYTWPFFDCYIIAQVNETLGNIEIAKEHYHKALSMASFGEARWEQYEEQHGGIWKTYKDFGYSGPDLKFEDWIKDSIVTYDTIEEYKKVLDKYLFYMYK
>NC_013520.1|WP_012865004.1|2065239_2065776_-|hypothetical-protein
MFHIVDVDNTLVFTDELNIAGYVHALACVDLEPCKVVPRITREIVQECYPQLTKGEVMHITRLKQDYVERHLEVSQLNESVARVLVTYGSERCALWTVANPERVRMLLRYHKITEYRAIRFSNKTEDDVAHAVQDFCALFGCEPEDLCFHEDNPEVINYLRKLGLTVMAVESVAECGK
>NC_013520.1|WP_012865005.1|2065803_2066751_-|DNA-processing-protein-DprA
MNISPIALKIWAVHNTTSRITTRKSFHDNWKTEDEFLAMMSDITDIDDVVHDLSVAVDDMDWMDGAVCCFDAEFPVINESVPKGDRPYLLFYKGDLSLLRDLNRNVAVIGYTTPNEALIARESKIVEHLVHHGQHIVSGLAKGCDAIGHTVCMDCGGKTIAILPSPLNAISPADHRDMAHQIIEKGGLVISEYYNGPRSRHEAINRYVERDRLQALFAKAVVLIASYEGRDGDSGSRHAMGKAHSYGHLACVMYDETTDGEVLEMKLNRSLLSQQKAKQLVTNPSGVGTTGYSSVMVDDLVSFVNPALEAQQKLF
>NC_013520.1|WP_042466850.1|2066752_2067427_-|amidophosphoribosyltransferase
MEVHMEQLIRRFTLSSNEYLSRDCVGYYRDLYLRFREPGNPDFLNTLKNTLNNYCPSVLKSARQEVYDRVKRDIPDIMKAEKLEEVVVAVVPRAKAFMSPNQLGFRDAVQECVRILQANGYSGITDGIGCIMRHTNTKTTHIHKNLPGFDNCGSEPYVGITNDTCHIDADAVRGKTVILIDDIYTKTVNVDEDCIQALYDAGAARVVFYAVAYTYRRSSYRKGA
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE

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Crispr_ID: NC_013520_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_4

2078943-2079035

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder

1 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,cas6,csx1

The CRISPR arrays of NC_013520_4

>merge|NC_013520|4|2078943-2079035|CRISPRCasFinder
CGACGCATACCGTAAACGGTAAGCGCTGTTGCAACCTTGGAAATTCACCACACACGGAACATGGACCGGGTTTCAATACCGTAAACGGTAAGC

>NC_013520|4|3|2078943-2079035|CRISPRCasFinder
CGACGCATACCGTAAACGGTAAG	CGCTGTTGCAACCTTGGAAATTCACCACACACGGAACATGGACCGG
GTTTCAATACCGTAAACGGTAAGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK

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Crispr_ID: NC_013520_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_5

2079134-2079301

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder

2 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,cas6,csx1

The CRISPR arrays of NC_013520_5

>merge|NC_013520|5|2079134-2079301|CRISPRCasFinder
CTGCACATACCGCAAACGGTAAGTGCTGTTGCAACGTAGAGCTAATGTTTTGAAACTCATTAAGTTCTTTGGGTTTCAATACCGTAAACGGTAAGTGCTGTTGCAACGAATCATCTAAAATTAAAATTGCCGATAGTTATAAATGTTTCAATACCGTAAACGGTAAGA

>NC_013520|5|4|2079134-2079301|CRISPRCasFinder
CTGCACATACCGCAAACGGTAAG	TGCTGTTGCAACGTAGAGCTAATGTTTTGAAACTCATTAAGTTCTTTGG
GTTTCAATACCGTAAACGGTAAG	TGCTGTTGCAACGAATCATCTAAAATTAAAATTGCCGATAGTTATAAAT
GTTTCAATACCGTAAACGGTAAGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK

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Crispr_ID: NC_013520_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_6

2079400-2079799

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	CRT
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	PILER-CR

5 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,cas6,csx1

The CRISPR arrays of NC_013520_6

>merge|NC_013520|6|2079400-2079799|CRISPRCasFinder,CRT,PILER-CR
CTGCGCATACCGTAAACGGTAAGTGCTGTTGCAACCTCTTTATGCAAATGCATAAAGAAATTCAAAACTCCCAATAGTTTCAATACCGTAAACGGTAAGAGCGGTTGCAACTTTAGGATTTGTAATCGGATTCGAATTATTTCTAGCGTTTCAATACCGTAAACGGTAAGAGCGGTTGCAACCCAAAGTAATTGTCATTTTGAAGTACAGCAATAATGTTTCAATACCGTAAACGGTAAGAGCGGTTGCAACGAAGCTGCAGACATGGCAATAGTAGAATATTCAACCCCTTCTAGTTTCAATACCGTAAACGGTAAGAGCGGTTGCAACTCTACATGATGCTGAAAATAAGAAAGCAGAACTAGGTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC

>NC_013520|6|5|2079400-2079787|CRISPRCasFinder
CTGCGCATACCGTAAACGGTAAG	TGCTGTTGCAACCTCTTTATGCAAATGCATAAAGAAATTCAAAACTCCCAATA
GTTTCAATACCGTAAACGGTAAG	AGCGGTTGCAACTTTAGGATTTGTAATCGGATTCGAATTATTTCTAGC
GTTTCAATACCGTAAACGGTAAG	AGCGGTTGCAACCCAAAGTAATTGTCATTTTGAAGTACAGCAATAAT
GTTTCAATACCGTAAACGGTAAG	AGCGGTTGCAACGAAGCTGCAGACATGGCAATAGTAGAATATTCAACCCCTTCTA
GTTTCAATACCGTAAACGGTAAG	AGCGGTTGCAACTCTACATGATGCTGAAAATAAGAAAGCAGAACTAG
GTTTCAATACCGTAAACGGTAAG

>NC_013520|6|4|2079400-2079799|CRT
CTGCGCATACCGTAAACGGTAAGTGCTGTTGCAAC	CTCTTTATGCAAATGCATAAAGAAATTCAAAACTCCCAATA
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	TTTAGGATTTGTAATCGGATTCGAATTATTTCTAGC
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	CCAAAGTAATTGTCATTTTGAAGTACAGCAATAAT
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	GAAGCTGCAGACATGGCAATAGTAGAATATTCAACCCCTTCTA
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	TCTACATGATGCTGAAAATAAGAAAGCAGAACTAG
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC

>NC_013520|6|4|2079476-2079799|PILER-CR
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	TTTAGGATTTGTAATCGGATTCGAATTATTTCTAGC
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	CCAAAGTAATTGTCATTTTGAAGTACAGCAATAAT
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	GAAGCTGCAGACATGGCAATAGTAGAATATTCAACCCCTTCTA
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC	TCTACATGATGCTGAAAATAAGAAAGCAGAACTAG
GTTTCAATACCGTAAACGGTAAGAGCGGTTGCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK

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Crispr_ID: NC_013520_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_7

2081083-2081178

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder

1 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,cas6,csx1

The CRISPR arrays of NC_013520_7

>merge|NC_013520|7|2081083-2081178|CRISPRCasFinder
CTGCGCATACCCTAAAAGGTAAGTACTGTTGCAACCAAAAAGCTCAAGACATACCAAGCCGATTATGTTTATGTTTCAATACCGTAAACGGTAAGA

>NC_013520|7|6|2081083-2081178|CRISPRCasFinder
CTGCGCATACCCTAAAAGGTAAG	TACTGTTGCAACCAAAAAGCTCAAGACATACCAAGCCGATTATGTTTAT
GTTTCAATACCGTAAACGGTAAGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|227838
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865007.1\|2067763_2068567_-\|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6	gnl\|CDD\|227838	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	9.70313e-08
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865007.1|2067763_2068567_-|CRISPR-system-precrRNA-processing-endoribonuclease-RAMP-protein-Cas6
MLGIVTIALEAQNRGSLPAFPGRYLHAALFSILSHADADEATWWHDMEGIKPFSLQLSFKEPRQDNIIRRGDILCLHVSVWHSELWGLLEGISEGLEVVFGRLRTTIIGIRYGVPFNLPLKVDNELELISRRLSAKQAKRITFEVMMPTSFNGTYGDITFPTSSLIFSSLVDKWNAGDMADVLDKDLIRTVAEKVTLERWEGHTKRVFYGRDRGLTGFVGKFTFNISKLTEEENQLITILALFGQHCGIGRLSSQSLGQVRVTLQNK
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK

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Crispr_ID: NC_013520_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_8

2081350-2081518

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder

2 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,csx1

The CRISPR arrays of NC_013520_8

>merge|NC_013520|8|2081350-2081518|CRISPRCasFinder
GTTTCAATACCGTAAACGGTAAATACTGTTGCAACCAGAGAACGTTGATATGACTACACAAGCTATCAGCGGGTTTCAATACCGTAAACGGTAAGTACTGTTGCAACTTGGTATTGCGACAATTTGAATGGAATTTTGCTCGAAAGTTTCAATACCGTAAACGGTAAGA

>NC_013520|8|7|2081350-2081518|CRISPRCasFinder
GTTTCAATACCGTAAACGGTAAA	TACTGTTGCAACCAGAGAACGTTGATATGACTACACAAGCTATCAGCGG
GTTTCAATACCGTAAACGGTAAG	TACTGTTGCAACTTGGTATTGCGACAATTTGAATGGAATTTTGCTCGAAA
GTTTCAATACCGTAAACGGTAAGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865026.1\|2102201_2102573_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK
>NC_013520.1|WP_012865026.1|2102201_2102573_-|hypothetical-protein
MKKWLAAMFAAGVFFVGGFGQAGAADWYYIDADADDAAWFIDNSSVYKTDDAATVLVKINNVEGFTYIYTVRIDRKEKTWTELDTTVYSNAGIALLSSKETQKPTKIEPDTMGAEVMQALWGK

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Crispr_ID: NC_013520_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_9

2081617-2081784

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAG	CRISPRCasFinder

2 spacers

cas2,cas1,csx20,cas10,csm3gr7,csx10gr5,csx19,csx1

The CRISPR arrays of NC_013520_9

>merge|NC_013520|9|2081617-2081784|CRISPRCasFinder
CGGCGCATACCGTAAACGGTAAGTACTGTTGCAACTCGTAGAAGTTCGTGAAATCTTCGGGAAAGGAGTAAAGTTTCAATACCGTAAACGGTAGGTACTGTTTCAACGAGGGGAATGGACAAGGAACGGAGAACACTTCAGACCAGTTTCAATACCGTAAACGGTAGG

>NC_013520|9|8|2081617-2081784|CRISPRCasFinder
CGGCGCATACCGTAAACGGTAAG	TACTGTTGCAACTCGTAGAAGTTCGTGAAATCTTCGGGAAAGGAGTAAA
GTTTCAATACCGTAAACGGTAGG	TACTGTTTCAACGAGGGGAATGGACAAGGAACGGAGAACACTTCAGACCA
GTTTCAATACCGTAAACGGTAGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865026.1\|2102201_2102573_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	csx19	cls001376_csx19_CAS-III-D	gnl\|CDD\|274900
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	csm3gr7	cd09726_csm3gr7_CAS-III-D	gnl\|CDD\|187857
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865011.1\|2072484_2074065_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	unknown
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_012865009.1\|2070580_2071144_-\|TIGR03984-family-CRISPR-associated-protein	gnl\|CDD\|274900	TIGR03984, hypothetical_protein_FrEUN1fDRAFT_5778, CRISPR-associated protein, TIGR03984 family. Members of this protein family are found exclusively in CRISPR-containing organisms, in operon contexts with RAMP (repeat-associated mystery protein) proteins also linked to CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats).	8.07188e-50
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_012865010.1\|2071136_2072471_-\|CRISPR-associated-protein	gnl\|CDD\|187857	cd09726, RAMP_I_III, CRISPR/Cas system-associated RAMP superfamily protein. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily proteins.	3.23541e-15
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14

>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_012865011.1|2072484_2074065_-|hypothetical-protein
MEQVNITITVKSPTLIANSSTAGVLTSTRGSIDGRVLRGLFASQFIFSHKLGREAHKNQDFMKLFYGDLRFVAAYKHTPKGTSFPAPLSLQKNKNAEGYASDDAVDFYTGKDLLGFKGVKGFVIVDGKECSPVQIETAIKLHMSRSLEQERVQGRSNEGRNIFNYEYIEPNQVFVGSVVGPKAALEEFVRQFPKQLDCHIGRSRRTEYGHCLVEIGDITVVPTPVNIGNSVYVRLHTPLVLGNESISHVVAQAVQPIGSDISVGTVFASYQEEQSFNSIWGVRSSAEASASAGSIVELVKESGWSQDDLDKLQNILYNGMGTRLQEGYGQGRLWTPGEFKMVKLGKQEAPKLKSLHTPTQEIAKKVLEKQVIVNARLRAAHDVDTYIKRTMSRSGIFKHFASVLLTELGTNHETGHKQLQQFLKDKKAEGQKKNEPRVIEKNLREFHLEHAYTRSETKSVNLMEYIIDFDAPTLVVACLAKSGESGTYYEIPAELVNMVGLDKQKLSNVVAYEYWTYFFRHIRKIK
>NC_013520.1|WP_012865010.1|2071136_2072471_-|CRISPR-associated-protein
MLNSASVMGRYTLTGTVKLTSPLVIRAGVSNDILNDTVDDIVVTYHDGQPFIPGTSLAGVLRQAIQGLEPVSEDVLFGSIDDKGTQSALQINDISLDNTNIVVRDGICIDDVRGVTKDGAKYNFEVIESGATGRLHIDCVIRQCHENQVDKIERALVALANLLKNGISVGARTVNGLGRIACKDISLEHYDFTKPEHVKGWLLRKAGTSVAIPERRMVADKDLVINMECYLEDTVLIKSIFEEAWEDKSVALFIPGTSIKGVLRHYCSRILQALGRSNQAVDALFGYSIEKTNESRKGRVMVDEVYFDKSFTQEEQPRIRVDRFTGGAMNGALFQDHPVRKGKGKQLVFPLRMTVKDCSDSEAGLVLLLVKDLMTGQITLGANRTIGYGRIKGNSVAVQYHGESYGIDGTGKVTEGESTKLEALVQALHQSTEDTMLAKEGAHE
>NC_013520.1|WP_012865009.1|2070580_2071144_-|TIGR03984-family-CRISPR-associated-protein
MSKQLYSHEGVYTRTCGICGPTANVNVLAVAKEQMKQEGLVITWSVHKVKWGYYKQGAFLFSDGTTNVDLAYLQDMRIFNESEELRLTVQHGEIVYRYINDETGEPVTYVDSSSRMIGEVDAGRTQLNRVEGFTSLVDTGRKLSQIIPVSTTKQYCYLTTRNYIGYLDNHQASYTDYRYVKIVDKEV
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK
>NC_013520.1|WP_012865026.1|2102201_2102573_-|hypothetical-protein
MKKWLAAMFAAGVFFVGGFGQAGAADWYYIDADADDAAWFIDNSSVYKTDDAATVLVKINNVEGFTYIYTVRIDRKEKTWTELDTTVYSNAGIALLSSKETQKPTKIEPDTMGAEVMQALWGK

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Crispr_ID: NC_013520_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_10

2091496-2092552

TypeIII

Consensus_repeat	Method
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CRT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	PILER-CR
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CRISPRCasFinder

14 spacers

csx1,cas2,cas1,csx20,cas10,csm3gr7

The CRISPR arrays of NC_013520_10

>merge|NC_013520|10|2091496-2092552|CRT,PILER-CR,CRISPRCasFinder
AGTACACATATCGTAACGATAAATACTATTGCAACCGCACTTAATGAAGCAAGAAGTTACCTTGAACGAAATGTCGTTTCAATACTGTAAACAGTAAGTACTATTGCAACGGTCCGACTGCGAGCGGTCAGAAATCAATTTTAGGGGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACAAAAACTAATTGATGCGTGAAGCTGGCTCAACTCCGATAAGTTTCAATACCGTAAACGGTAAGTACTATTGCAACGAGAATTATTATGTGTGTTATCGCAGTTTATGAAGCGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTCTGCAGCATTTGGCCATAAAAATAAAGCTATTGGTTTACAGTTTCAATACCGTAAACGGTAAGTACTGTTGCAACTTGATGATGAAGGCGAATTCCATGAAGAAGGTGAAGAGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTTGTATGTTACGATTATTTATTATAATGTTTATAAAGGAGGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTAGCCAGCTTGATAATATTAATAATATTGATCTTATTGGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTTAACATTTGATAATATTGTGCACCGCCATCAATACAAGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACCCTGTAAGTCACTATCATAAAGCACTAGGCGAATGGGTGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACCACGACTTTAATAATTATAGTCGTGACTAATTTATAGAGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTTTGATGTTCTGATTTAGTAATAATATTCATATAATGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACCACGACTTTAATAATTATAGTCGTGACTAATTTATAGAGTTTCAATACCGTAAACGGTAAGCACTGTTGCAACTTTGATGTTCTGATTTAGTAATAATATTCATATAATGTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC

>NC_013520|10|5|2091496-2092552|CRT
AGTACACATATCGTAACGATAAATACTATTGCAAC	CGCACTTAATGAAGCAAGAAGTTACCTTGAACGAAATGTC
GTTTCAATACTGTAAACAGTAAGTACTATTGCAAC	GGTCCGACTGCGAGCGGTCAGAAATCAATTTTAGGG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	AAAAACTAATTGATGCGTGAAGCTGGCTCAACTCCGATAA
GTTTCAATACCGTAAACGGTAAGTACTATTGCAAC	GAGAATTATTATGTGTGTTATCGCAGTTTATGAAGC
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TCTGCAGCATTTGGCCATAAAAATAAAGCTATTGGTTTACA
GTTTCAATACCGTAAACGGTAAGTACTGTTGCAAC	TTGATGATGAAGGCGAATTCCATGAAGAAGGTGAAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTGTATGTTACGATTATTTATTATAATGTTTATAAAGGAG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TAGCCAGCTTGATAATATTAATAATATTGATCTTATTG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTAACATTTGATAATATTGTGCACCGCCATCAATACAA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CCTGTAAGTCACTATCATAAAGCACTAGGCGAATGGGT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC

>NC_013520|10|5|2091571-2092552|PILER-CR
GTTTCAATACTGTAAACAGTAAGTACTATTGCAAC	GGTCCGACTGCGAGCGGTCAGAAATCAATTTTAGGG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	AAAAACTAATTGATGCGTGAAGCTGGCTCAACTCCGATAA
GTTTCAATACCGTAAACGGTAAGTACTATTGCAAC	GAGAATTATTATGTGTGTTATCGCAGTTTATGAAGC
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TCTGCAGCATTTGGCCATAAAAATAAAGCTATTGGTTTACA
GTTTCAATACCGTAAACGGTAAGTACTGTTGCAAC	TTGATGATGAAGGCGAATTCCATGAAGAAGGTGAAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTGTATGTTACGATTATTTATTATAATGTTTATAAAGGAG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TAGCCAGCTTGATAATATTAATAATATTGATCTTATTG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTAACATTTGATAATATTGTGCACCGCCATCAATACAA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CCTGTAAGTCACTATCATAAAGCACTAGGCGAATGGGT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC

>NC_013520|10|9|2091571-2092552|CRISPRCasFinder
GTTTCAATACTGTAAACAGTAAGTACTATTGCAAC	GGTCCGACTGCGAGCGGTCAGAAATCAATTTTAGGG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	AAAAACTAATTGATGCGTGAAGCTGGCTCAACTCCGATAA
GTTTCAATACCGTAAACGGTAAGTACTATTGCAAC	GAGAATTATTATGTGTGTTATCGCAGTTTATGAAGC
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TCTGCAGCATTTGGCCATAAAAATAAAGCTATTGGTTTACA
GTTTCAATACCGTAAACGGTAAGTACTGTTGCAAC	TTGATGATGAAGGCGAATTCCATGAAGAAGGTGAAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTGTATGTTACGATTATTTATTATAATGTTTATAAAGGAG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TAGCCAGCTTGATAATATTAATAATATTGATCTTATTG
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTAACATTTGATAATATTGTGCACCGCCATCAATACAA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CCTGTAAGTCACTATCATAAAGCACTAGGCGAATGGGT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	CACGACTTTAATAATTATAGTCGTGACTAATTTATAGA
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC	TTTGATGTTCTGATTTAGTAATAATATTCATATAAT
GTTTCAATACCGTAAACGGTAAGCACTGTTGCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865026.1\|2102201_2102573_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_012865029.1\|2106453_2107716_-\|DNA/RNA-nuclease-SfsA	unknown	unknown	gnl\|CDD\|224406
NC_013520.1\|WP_012865028.1\|2105290_2106097_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865027.1\|2102651_2105120_-\|DNA-gyrase-subunit-A	unknown	unknown	gnl\|CDD\|235502
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14
NC_013520.1\|WP_012865027.1\|2102651_2105120_-\|DNA-gyrase-subunit-A	gnl\|CDD\|235502	PRK05560, PRK05560, DNA gyrase subunit A; Validated.	0
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865029.1\|2106453_2107716_-\|DNA/RNA-nuclease-SfsA	gnl\|CDD\|224406	COG1489, SfsA, DNA-binding protein, stimulates sugar fermentation [General function prediction only].	3.23754e-59
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654

>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK
>NC_013520.1|WP_012865026.1|2102201_2102573_-|hypothetical-protein
MKKWLAAMFAAGVFFVGGFGQAGAADWYYIDADADDAAWFIDNSSVYKTDDAATVLVKINNVEGFTYIYTVRIDRKEKTWTELDTTVYSNAGIALLSSKETQKPTKIEPDTMGAEVMQALWGK
>NC_013520.1|WP_012865027.1|2102651_2105120_-|DNA-gyrase-subunit-A
MADQQWSHGNIHPVQIDKEMKNAYIDYAMSVIVMRALPDVRDGLKPVHRRILYAMHETGMTPNKPYKKSARIVGDVLGKYHPHGDSSVYDATVRLAQDFNTRYLLVDGHGNFGSIDGDSAAAMRYTEVRMAKITTEMLADIDKETVDFMPNYDESLQEPTVLPAKIPNLLINGSSGIAVGMATNIPPHNLNEVCNGLAMLIDNPDVTVDELMTAIKGPDFPTGALILGREGIKKAYSTGRGSVKMRARATIEEMSKGKHKIVVTEIPYQVNKARVIETIANLSRDKVIDGITALRDESDRQGMRIVIELRADVQPDIVLNKLYKHTQLQESFGVIMLALVDGHPRVLNLKEVLGYYLDHRLDVIVRRTQFELNKAEARAHILEGLLIALDHIDEVIATIRSSQTDEIARNALMQKFGLSEKQAVAILDMRLRRLTGLEREKIEEEYKELLALIEDLKAILGSEARQRQIIKDELDDMKKKYGDPRRSEITIDTSDLDVEDLIADEEMVITLTKQGYIKRMNANVYRNQHKGGAGVIGMKTKEDDYVTQIMHVRTHNTLLFFTSAGRAYRLKAYEVPEAGSRNSRGTAMVNVLPLAVGESVTTMIDLERVHEDVNLFMVTEFGVVKRTAIEEYRNIRRSGLNAINLDEGDRLISVNVTTGNQDILIGTKLGIAIRFSEHDVRLMKRAAHGVRGIKLNAGDVVVGAGVLNTDESEAQVFTISEEGFGKRNDAEAYTLQKRGGKGSKNFKITNKTGDVVAVEVVHNDDEVMLISEQGKIIRFNMNDIAVKKGKAISGVKTQNLDEGDKVASIAVIPGAEIEEEVE
>NC_013520.1|WP_012865028.1|2105290_2106097_-|hypothetical-protein
MPLFVRFVLLVLVCVCSVVLSGCSFIWTTENGDPATPEDIKSSVEKEFSVVHPNLVLQSSVVEKEKPFQRNVYVFYDESNGFSFTTNSVVKWPTLPAPGGERKNDANFTYSQAYLVHLNGSLVERAKQYGMRMATHEEALELAKSKATRVAGTNKISLFTYDEIIFVDESVKGKDILTFMKSIYSLYKPQDNPALLHPPSDRSVGFYYLPKEEADKTKAKYLIAFRFMAKNDWKETMLTGIGSTGNDTSAVERDFVSILDHMIQHAAH
>NC_013520.1|WP_012865029.1|2106453_2107716_-|DNA/RNA-nuclease-SfsA
MKVLYDTILKATYIGRPNRFVVTLDLNGESILAHLPNPGRMWELLFTGVTMYIVPHDKPDAKTKYRVIGIERDGVVIMLDTNYSNDVAQHLIENKLIPGWEEWRVVRREYTVKLHGTSSRFDLLLTNDKGDEFLLEVKSCTLFSKTGAMFPDAITERGRKHLLHLKELQNEGYHTGVLFLVQWDQAQWFLPDYHTDLEFARTFKEVAPFLDWKAVAVAWDETFTMPTVTHECSYPSSVLDTEAHDSGVYVMVMHLDHDLDLEIGSKGMMHFKSGYYMYVGSAKANLTKRIERHKRKRKKMHWHLDYFRGYCEMIAGLPIRTSGRPQAMTISAQERRKGKFSDDDSAVRESADVDLTKIDVECALADAVRAIAEWNVPNFGCSDCECNSHLFGMSENPIHNKKFMNVIEDFRMNRLDALVK

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Crispr_ID: NC_013520_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013520_11

2093952-2094382

TypeIII

Consensus_repeat	Method
GTTTCCGTCCCCTAATGGGGATCATTTAATTTAAC	CRISPRCasFinder

5 spacers

csx1,cas2,cas1,csx20,cas10,csm3gr7

The CRISPR arrays of NC_013520_11

>merge|NC_013520|11|2093952-2094382|CRISPRCasFinder
AGAACCGGCCCCGTAAGGGGATTATTTAATTTAACATTAGACATGAATTACTGCATATCATTAATGATGATTTCCATATGTTTCCGTCCCCAAATGAGGATTATTTAATTTAACACATGACGGATAAAGAATATAGAGAATTAGCCAAAGAGTACCTAGTCTCCGTCCCCTAATGAGGATCATTTTATTTAATATTAGTGCAACAAAAGAAGCTATTGCTATAGGTCATATAGCTTGGTTTCCGTCTCCATCAGGGGATTATTTAATTTAACAAGCATTGAATATCTATGATTTCACAGTGCAAACTCAATTAGTACGGTTTCCGTCCCCTAATGGGGATCATTTAATTTAACATTCGTGAAATGACGGGTGCAGATGAAGAAAGTTTACAAGTGAGTTTCCGTCCCCTAATGGGGATCATTTAATTTAAC

>NC_013520|11|10|2093952-2094382|CRISPRCasFinder
AGAACCGGCCCCGTAAGGGGATTATTTAATTTAAC	ATTAGACATGAATTACTGCATATCATTAATGATGATTTCCATAT
GTTTCCGTCCCCAAATGAGGATTATTTAATTTAAC	ACATGACGGATAAAGAATATAGAGAATTAGCCAAAGAGTACCTA
GTCTCCGTCCCCTAATGAGGATCATTTTATTTAAT	ATTAGTGCAACAAAAGAAGCTATTGCTATAGGTCATATAGCTTG
GTTTCCGTCTCCATCAGGGGATTATTTAATTTAAC	AAGCATTGAATATCTATGATTTCACAGTGCAAACTCAATTAGTACG
GTTTCCGTCCCCTAATGGGGATCATTTAATTTAAC	ATTCGTGAAATGACGGGTGCAGATGAAGAAAGTTTACAAGTGA
GTTTCCGTCCCCTAATGGGGATCATTTAATTTAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013520.1\|WP_042466858.1\|2088282_2090679_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274357
NC_013520.1\|WP_004694448.1\|2094745_2095354_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865026.1\|2102201_2102573_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865018.1\|2083917_2085933_+\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-protein	csm3gr7	mkCas0198_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_013520.1\|WP_012865029.1\|2106453_2107716_-\|DNA/RNA-nuclease-SfsA	unknown	unknown	gnl\|CDD\|224406
NC_013520.1\|WP_012865028.1\|2105290_2106097_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_013520.1\|WP_012865027.1\|2102651_2105120_-\|DNA-gyrase-subunit-A	unknown	unknown	gnl\|CDD\|235502
NC_013520.1\|WP_169302147.1\|2081181_2081346_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865025.1\|2101729_2102104_-\|hypothetical-protein	unknown	unknown	unknown
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	unknown	unknown	gnl\|CDD\|366376
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|379062
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	unknown	unknown	gnl\|CDD\|274171
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|274209
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	unknown	unknown	gnl\|CDD\|377540
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	csx1	cd09732_csx1_CAS-III	gnl\|CDD\|274040
NC_013520.1\|WP_012865014.1\|2076334_2076700_-\|hypothetical-protein	csx20	cls000118_csx20_CAS-I:CAS-III	unknown

Protein	Function_ID	Function_description	E-value
NC_013520.1\|WP_012865021.1\|2095673_2096540_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274357	TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.	4.16732e-14
NC_013520.1\|WP_012865012.1\|2074052_2074700_-\|CRISPR-associated-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.	1.3501e-12
NC_013520.1\|WP_052293369.1\|2077905_2078184_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	4.21509e-14
NC_013520.1\|WP_012865027.1\|2102651_2105120_-\|DNA-gyrase-subunit-A	gnl\|CDD\|235502	PRK05560, PRK05560, DNA gyrase subunit A; Validated.	0
NC_013520.1\|WP_042466852.1\|2076892_2077891_-\|CRISPR-associated-endonuclease-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.	5.74182e-95
NC_013520.1\|WP_012865024.1\|2099971_2101402_-\|iron-hydrogenase-small-subunit	gnl\|CDD\|274171	TIGR02512, Periplasmic_hydrogenase_large_subunit, [FeFe] hydrogenase, group A. This model describes iron-only hydrogenases of anaerobic and microaerophilic bacteria and protozoa. This model is narrower, and covers a longer stretch of sequence, than pfam02906. This family represents a division among families that belong to pfam02906, which also includes proteins such as nuclear prelamin A recognition factor in animals. Note that this family shows some heterogeneity in terms of periplasmic, cytosolic, or hydrogenosome location, NAD or NADP dependence, and overal protein protein length.	1.24464e-179
NC_013520.1\|WP_012865029.1\|2106453_2107716_-\|DNA/RNA-nuclease-SfsA	gnl\|CDD\|224406	COG1489, SfsA, DNA-binding protein, stimulates sugar fermentation [General function prediction only].	3.23754e-59
NC_013520.1\|WP_012865023.1\|2098333_2099482_-\|glycosyl-hydrolase-family-3	gnl\|CDD\|366376	pfam00933, Glyco_hydro_3, Glycosyl hydrolase family 3 N terminal domain.	2.07363e-31
NC_013520.1\|WP_012865022.1\|2096833_2097898_-\|ATP-binding-protein	gnl\|CDD\|379062	pfam13191, AAA_16, AAA ATPase domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	1.42684e-05
NC_013520.1\|WP_012865013.1\|2074702_2076304_-\|hypothetical-protein	gnl\|CDD\|274209	TIGR02578, CRISPR-associated_protein_Cas10/Csm1, CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2. A typical example is TM1811 from Thermotoga maritima. CRISPR are Clustered Regularly Interspaced Short Palindromic Repeats. This protein family belongs to a conserved gene cluster regularly found near CRISPR repeats.	6.6558e-05
NC_013520.1\|WP_042466856.1\|2078295_2078715_-\|DUF805-domain-containing-protein	gnl\|CDD\|377540	pfam05656, DUF805, Protein of unknown function (DUF805). This family consists of several bacterial proteins of unknown function.	7.52995e-10
NC_013520.1\|WP_148207747.1\|2085996_2088150_-\|hypothetical-protein	gnl\|CDD\|274040	TIGR02221, CRISPR-associated_protein_Csx1_2, CRISPR-associated protein, TM1812 family. 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, represented by TM1812 of Thermotoga maritima, is found also in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, a large plasmid of Synechocystis sp. PCC 6803, and Fibrobacter succinogenes S85.	0.00122654

>NC_013520.1|WP_042466858.1|2088282_2090679_+|hypothetical-protein
MYIFKRESIMATTTNYLNDLASMRQFIRSLTFGNHNRGKATVRGIKESQHDDVIRRLDYFDIIRHIYTQRIGKTSIHHLAKDDFIDGYNYLNNLYELYAAVPEQIYVQLCILSYIGANDDVTITDLYNNLNQEPYLDHYIDLVENLYEQRNKKQEPPCIIDQQYIQRQVKTLEILGAITKTEHTKGYAYSIKPTIIEELSKQQLQELAMAVFFYTNISITSAAGHILLKKIMYLINDFSLKDQQKSMYYDFNNTYFSFKDNNPNNVIDGDIFYPLADALHRQKKVRLSFYESGKPREIVSPLALQTHYGENKNMLCSINNGRIQWNRIDRIKALEVTKYNSTNAVPKIQTRNKTFDTCIIHFLTLKNYELVYDKFIRHFKEFLTVLSKTDEYIELQLKVPDTLQLLPQLRSYLPYVYITYTNKSSIKDKFYNNLYASLNIDFVEPEGYKKRKKINRFLHPLQRKESNNNNTKKDKDLDGTYVSSVLNDINAITFTTQYQLQLDLINGVVHTKQDIEELINHRRLLTPAPYKKVLRNDDYEQFLADALVEPNENGEEVESILPDLPLVIISDAERMFLKDLISDTRANWLLSPELCQILSTELETADTTFPRGSWTRVPTMTDDTPLTMQVIIQCLQAIQNNKRIIIQDKDLSPCRIEYSVGSNGYTLIAYDHATDTFLDYPLRNESNIIKTAAPRLEDIETIYANYRDESKRTVTFTLHDANNAVDRCFNYFSNYTIQAKDINDEEFTIEVSYLPFQEIDILRHLLKLGCAVRITDDGPLKKQLETIYKIALIHAPSI
>NC_013520.1|WP_148207747.1|2085996_2088150_-|hypothetical-protein
MKAMAIHNIFLSFLSKVSNTSIKTIVNADMEDAIRSSIATNESSLKYILYHTWKDEKTRDISFDKIYLLCTDGVMAHQSNSPSSYDIFVNQMCKFYKVMGRNEQAFLDALDHVPCGTDLDDISRIKSSIIEMSKKILDFKDTFTNDKDEVRLYMDITGGPRNAAMILLVISRLLAYHGIVVDDVYYSGYKEIENDSGEITVHKVLDIYELFDIIAGFEEFKLFGSAKKLNTYFKPPENIGTGNIESTATATKKLLKAMDSFSEAINISSRGAFEKSIACLDDSLALVRSMANNIDSNKTFDQELIELLHKPIEQSYTTLLQHHRNHASDELAYIDWCLDHDYLQQALTLFCEYVPEYAVDKGIIECDPLVFNAYYEDTQQNKEKRLLQAAIKAWNRAGNNIEFSTFYNVVMPDHDKKTSEKDVRSMPMRLFNSINNARMQNLTAMINTKKDKVAPGIDKVITYYIKFVRNEKKKIQIVERDFQKQKECIHLMVDEYTTKLREKCEVLLNQYGFTLYLQDGRYADNYTLLEYISFLQDILESSENIENFNNILESLCKNIISEVLSKEEYKEYIICDADNSSFRLKKTSMLARNMVCNAILNHLIEEKKYKAYKSLIMHQLPDTKDSAVTTAELLLSQRKPYDKGVPLFEVSGVYIPHVALEDVTKTMKFIEQYFEIKKARNDSNHANKEALCKYTTSQELLDEMRKCVAMARELSRK
>NC_013520.1|WP_012865018.1|2083917_2085933_+|hypothetical-protein
MEHHIYLTFLSTLNTKDNPYNPQKLEKTVINLTELAPFDIIRQTNESALKYLLHNKRKENSTFKLDKLFFFKSPEMENTFKESTISSLNVFEEQMCDYINNTSIPITWGPEIINYIDCGDIDYIDNLKDSIIDMSQAIMEYYKSKSSDDRVILHVDLSGGPRTAIMLMIAIIRLVAFQGIEIGTILYANVNANNNSIVRVYEGNSIYNIYDMITGFAEFNQFGSVDTLKNYVNTLDNPDVQIKELISSMGDFSEAVRLSSRGMFQRSMEDIHKLLTDIESSKQEIPVNYRENHKNFEIEALKLMSGKIQNNYKTVLANKEDDLAYIDWCLANGYLQQALALFAEFVPRAILESKMIILDDTIFPTDSDNELSASMENFNTINEYTAKTMESVNNIATKINNKIKSVLLKYFSGDFSKESKQIIQRTLKNKKNNISTNITREDTQYPKFEEQLINDINQIILKEAEKEPHNYLKYKTFTNNNVNVPSKLLRLISNIGINTKSIVGINEFSKDIRRYFTAALVHQLKEFKDLPSDVVTVNDQYEIILNDTNKLFKVRDAFISIFTNSNNDDIYRFLFANFVSYQYPIDLFPHQLYGIDGLTLNSVLKSNPEKITQVARILNLYRTLKGSRNDTAHAREEKRGQFIESEDIKRELKQCLNDIREVREYICTYNQ
>NC_013520.1|WP_169302147.1|2081181_2081346_-|hypothetical-protein
MFTIIHIGICSKLQEYLLFMVCAEGCETAEEQSDDEVRTPQVPERSEGKTEVMR
>NC_013520.1|WP_042466856.1|2078295_2078715_-|DUF805-domain-containing-protein
MIIKEGIMENLQEELKSMLSLSGRMNRRSYFMNLLMIIGIGYLGGLCISLAPVSKFFWVLGWSIIGYSVIRELAIASRRIHDLNGPTYLAGIYIVAAIIAIFEPTLAKIMGFVKIGLVLMPGDEDPNNYGERPDSMIVV
>NC_013520.1|WP_052293369.1|2077905_2078184_-|CRISPR-associated-endonuclease-Cas2
MMRYLISYDISDTKIRNKVVKYLESFCYRIQYSVFLCVHAHVRVETIAKRLEVLTQGDETRRLLIVSISDTAKTPIWCNKIIPLTEDKMLII
>NC_013520.1|WP_042466852.1|2076892_2077891_-|CRISPR-associated-endonuclease-Cas1
MMLETLYVMTPGISIRQDGGLLVLEKDHSVIKEIPIATVSNLVLGRTIQISTQVMFSLVKQGSLIQFVDHKYQLVGTLGDEHTPLQRLLWQVACFQNQEFALDGAKYIVRRKIKGQIALLNQYKKSKCIPNFVVVHRTMQALLKRVERTKKVETLRGIEGLASRTYFSVLGHVLSEPWEFSGRKRHPSPDPVNAILSYGYSFLEREVRACLLTAGLDVRIGVLHSTNNRKDSLVYDVMDIFRQDIIDRFVLKLLNRHMILPEDFDLSERGCFLSKEANKKWVELYEDYMKAELSRIDNLAPRKWIQQEIQAFISYLKSLDETVDIEKSENIS
>NC_013520.1|WP_012865014.1|2076334_2076700_-|hypothetical-protein
MFINHTNHPSQYWSDEQLAAAHQYGEVVDIPFPLIDPALPSGEIGQLVQEYAGRIISLNPQVVLCQGEFIYCHALVERLLAVGITVLAATSERLVSESYEAGINEKIVNFQFVQFREYCHL
>NC_013520.1|WP_012865013.1|2074702_2076304_-|hypothetical-protein
MQVNAILFDVQSIQKYIFANNKLKANVGASFIVDRLFEDVLCKEIINKLEVEADTTSWLTRSDSITSLPKPIYVAYIGGGNALVLIDDKHESLVQDIVKKFTTQVLVQYPGLKVGATTGYITLDGIQFSADLGKLYKQLKSNQFALNPIVHPANTGLTTICDFSGDVADTTQSFGDDKRLVATSFTAKFKAFEAANSRLKIDLFGTETTDWVFPSEFEELGQNQSTEKSKTGINDIAIVHIDGNNMGAHFRQCKTLEERSALSKRVATKTLESFKALVQWIIDKYDILDENLELSKNMLPIRPIIIGGDDITFICNARIAVQASHYLMQQLLSDKNGISISSCAGIAVIPTSYPFFRGYEMAEQLCDSAKSKMREYNAVHKVNESCWMDFAFLHGETAPTLGQFFANEYSSLTGNMHFGPYQVFNDNIEAEKDIFALSKLLECTHQFILVKDKAYSGELLAHNKVKELRSVLQDNEHMWTVFLEQLRNTNKFMPTVSGWDAFKEKLWAKVDGKMRTPYVDAIELMDYVLPGLE
>NC_013520.1|WP_012865012.1|2074052_2074700_-|CRISPR-associated-protein
MYTLTIKLLSPTMLMSGQGDVNTDSTIVHDRYGIPFIPAKRVRGVLYESAIEVAEMMNAAGLNAFTIDNVKVLFNRLEGAEDNPRLSISNLTIADYEVVASELAALEEQYPAVFTKERVLEEYTSMRYYTSIDQVTGTALEGTLHNSRVLNRGLAFSGQIDVEDMTETERLILACAVRNLTGIGGKRNRGFGQVECTIDDTSFDLESLGGTLWNK
>NC_013520.1|WP_004694448.1|2094745_2095354_-|hypothetical-protein
MAIDDKLTDLMAARLSKGEDLDLIYTNPKNHIVCFIPTYQPSGGDSTKCYFVDGREEMVHLPMRTITRELAMQEGLRPNYIMTSDGRRSSYTAPKTYGPHLTFAHIKCRRPIGKDVVYGLFNVAIPYEYIVTEGPEPDTSYIHVADFAPILVYQSPRHVKHKLNEAMLEHCNYVRKMLARIKLSQNPQVVAELFIAWRDLTR
>NC_013520.1|WP_012865021.1|2095673_2096540_-|sigma-70-family-RNA-polymerase-sigma-factor
MLYTNEEPLVQRTCIKTANLQHDNYQSEKLETQALPSHSLLSKADESSRSIPEKLKLQTLVYGHQVLSSLSDKSLVSICQKPNMRIQTVGYQPWSVDELRHDAAQIELCRRYRPLILHYTNRMGNREFREDVESYLWAILIESIYSFDLEGPVPFPGFVKAGIMYGYMRYWKRERLRYRREIHIPDRTTDDGEVAFGMDIFASGENVADMVMSADEEHRLRARLVWALGRLSPDQRDLLRRVYGECQSLVSVSEELNCSRQAIQRRHERAIRKLRRYLSTDFEVLRVH
>NC_013520.1|WP_012865022.1|2096833_2097898_-|ATP-binding-protein
MNFVGRAEIIESIQSRIALGRMSLCVVYGPHRSGKSYVASQLVRRHKAVYLAGRMANESVHVADINRALEARFVPADAQDTFEPVESLQQAFVRLFESSVKTPQTVVIDDYPSLVEAVPQFPIHLRDLLDTYKDTSRLNIILMANGMEQLDGRIIGNRSLIGPFVSEYLEVKPFSLVDMKSLGLHYAKDDLRTVFAVTGGLPAYVQYFDNGESIDTNIINLFFSVTGALFEETQYILHRDMKNITGANAILTGLASLERPYYVELLQESQIKSGTFTSRLNDLMSMGLVGRIQASSRGNAKYADYHFTNSMFHFWYRYVYKYWGDIVRGYGADVYYNHVKPQLNDFVQAACIAI
>NC_013520.1|WP_012865023.1|2098333_2099482_-|glycosyl-hydrolase-family-3
MNQFFRRVLSGLALLVAVVGTTGCQHESQAEQETVRTVSYRAVMESNKPVSEKVDTWIAAMSQEDKVGQLMMISLHGSTIGQSQKDVIRKYRVSGVMLTNENLINKNQVKTFTSDIMQTAITSSMVTPYIGVHRDRILHGNESFLRLPKPNRWGQLPMDRIINLATRSAIEMRDMGFNLVIGPNANLGVPNMSYTSDPTWAGHINLAMVERYQINHMWFAYNYFPAVTLGDASFGSANEAKAYLSNNDVAVFKRLIAQTTANSYMLVMSHIQIPAIDNEHLASSSKPIIDGWLRKELGYKGIVMTDRIDVGALQSNQKIGDYAVASILAGSDLILVDADTIHIDEVYRALTQAVADGTISNERLNESVKRILLMKMQTQIDP
>NC_013520.1|WP_012865024.1|2099971_2101402_-|iron-hydrogenase-small-subunit
MSQYEFIDKRVPIALDNPSIYHDISKCKNCTLCRRACADVMSVLDYYDLDANGDVPVCIHCGQCAAACPFDSMHAKSELEKVKAALADPEKIVVIQTAPAVRVAIGEGFGYEPGTFLEGKMVGALRALGADYVVDTNFGADLTIMEEASELVERLKNGGQIPQFTSCCPAWVRFAEIYFPELIPNLSSTRSCIAMEAAMIKTYFAEKKDIDPRNIVSVSVNPCTAKKAETKREEENAAARYHNDDSLGMDTDISITTREFIRWIQEENLDFNAIEDSKFDDLIGMETGASIIFGNTGGVMEAAMRTAYKLITDKEPPPYALTHLEDVRGMEGVKEATVQLGDDVTLSVAVVHGGKNTRDFLNALKDSGKHYDFIEVMACPGGCIGGGGQPRTKLPQAVKTKEARIGGLYEADENYKWVASYENEEIQTLYKDFLGEPLGHKAHELLHTHYTDRSAVLGTRKDVTPETCPTSPKFKG
>NC_013520.1|WP_012865025.1|2101729_2102104_-|hypothetical-protein
MKKTLAAVLAAGALLIGGIGSVDAANWYTVGTDSNGVTWSIDNDSVKKDDKKAVMDIKAMDYEGYHYIVTEEFNHKKREVKDLKVTLYNPQGYVVKEEQVNKDSRKVEPGTPAYAVFQLIWGDK
>NC_013520.1|WP_012865026.1|2102201_2102573_-|hypothetical-protein
MKKWLAAMFAAGVFFVGGFGQAGAADWYYIDADADDAAWFIDNSSVYKTDDAATVLVKINNVEGFTYIYTVRIDRKEKTWTELDTTVYSNAGIALLSSKETQKPTKIEPDTMGAEVMQALWGK
>NC_013520.1|WP_012865027.1|2102651_2105120_-|DNA-gyrase-subunit-A
MADQQWSHGNIHPVQIDKEMKNAYIDYAMSVIVMRALPDVRDGLKPVHRRILYAMHETGMTPNKPYKKSARIVGDVLGKYHPHGDSSVYDATVRLAQDFNTRYLLVDGHGNFGSIDGDSAAAMRYTEVRMAKITTEMLADIDKETVDFMPNYDESLQEPTVLPAKIPNLLINGSSGIAVGMATNIPPHNLNEVCNGLAMLIDNPDVTVDELMTAIKGPDFPTGALILGREGIKKAYSTGRGSVKMRARATIEEMSKGKHKIVVTEIPYQVNKARVIETIANLSRDKVIDGITALRDESDRQGMRIVIELRADVQPDIVLNKLYKHTQLQESFGVIMLALVDGHPRVLNLKEVLGYYLDHRLDVIVRRTQFELNKAEARAHILEGLLIALDHIDEVIATIRSSQTDEIARNALMQKFGLSEKQAVAILDMRLRRLTGLEREKIEEEYKELLALIEDLKAILGSEARQRQIIKDELDDMKKKYGDPRRSEITIDTSDLDVEDLIADEEMVITLTKQGYIKRMNANVYRNQHKGGAGVIGMKTKEDDYVTQIMHVRTHNTLLFFTSAGRAYRLKAYEVPEAGSRNSRGTAMVNVLPLAVGESVTTMIDLERVHEDVNLFMVTEFGVVKRTAIEEYRNIRRSGLNAINLDEGDRLISVNVTTGNQDILIGTKLGIAIRFSEHDVRLMKRAAHGVRGIKLNAGDVVVGAGVLNTDESEAQVFTISEEGFGKRNDAEAYTLQKRGGKGSKNFKITNKTGDVVAVEVVHNDDEVMLISEQGKIIRFNMNDIAVKKGKAISGVKTQNLDEGDKVASIAVIPGAEIEEEVE
>NC_013520.1|WP_012865028.1|2105290_2106097_-|hypothetical-protein
MPLFVRFVLLVLVCVCSVVLSGCSFIWTTENGDPATPEDIKSSVEKEFSVVHPNLVLQSSVVEKEKPFQRNVYVFYDESNGFSFTTNSVVKWPTLPAPGGERKNDANFTYSQAYLVHLNGSLVERAKQYGMRMATHEEALELAKSKATRVAGTNKISLFTYDEIIFVDESVKGKDILTFMKSIYSLYKPQDNPALLHPPSDRSVGFYYLPKEEADKTKAKYLIAFRFMAKNDWKETMLTGIGSTGNDTSAVERDFVSILDHMIQHAAH
>NC_013520.1|WP_012865029.1|2106453_2107716_-|DNA/RNA-nuclease-SfsA
MKVLYDTILKATYIGRPNRFVVTLDLNGESILAHLPNPGRMWELLFTGVTMYIVPHDKPDAKTKYRVIGIERDGVVIMLDTNYSNDVAQHLIENKLIPGWEEWRVVRREYTVKLHGTSSRFDLLLTNDKGDEFLLEVKSCTLFSKTGAMFPDAITERGRKHLLHLKELQNEGYHTGVLFLVQWDQAQWFLPDYHTDLEFARTFKEVAPFLDWKAVAVAWDETFTMPTVTHECSYPSSVLDTEAHDSGVYVMVMHLDHDLDLEIGSKGMMHFKSGYYMYVGSAKANLTKRIERHKRKRKKMHWHLDYFRGYCEMIAGLPIRTSGRPQAMTISAQERRKGKFSDDDSAVRESADVDLTKIDVECALADAVRAIAEWNVPNFGCSDCECNSHLFGMSENPIHNKKFMNVIEDFRMNRLDALVK

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

329068 : 339862

Tetraselmis_virus(28.57%)

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_012863833.1\|329068_330019_+	2-hydroxyacid dehydrogenase	M1I4S0	Paramecium_bursaria_Chlorella_virus	1.2e-29	29.1
WP_008603003.1\|330033_330597_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012863834.1\|330797_332693_+	cation-translocating P-type ATPase	E4ZFI9	Streptococcus_phage	2.6e-92	38.2
WP_004693958.1\|332812_333589_-	pyruvate formate lyase-activating protein	A0A2P0VNQ0	Tetraselmis_virus	4.3e-17	27.6
WP_004693956.1\|333601_333838_-	autonomous glycyl radical cofactor GrcA	A0A2K8HAT8	Bacteriophage	1.5e-18	75.0
WP_012863835.1\|333913_336031_-	formate C-acetyltransferase	A0A2P0VNR5	Tetraselmis_virus	2.5e-160	44.3
WP_012863836.1\|336529_337402_+	helix-turn-helix transcriptional regulator	S5MAC0	Brevibacillus_phage	5.9e-07	39.5
WP_012863837.1\|338839_339862_+	ATP-binding cassette domain-containing protein	G9BWD6	Planktothrix_phage	1.6e-32	36.9

DBSCAN-SWA_2

452584 : 458557

Prochlorococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012863929.1\|452584_453076_+	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	3.0e-32	48.4
WP_038125857.1\|453193_453907_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3FCN6	Synechococcus_phage	6.3e-47	44.8
WP_012863930.1\|453918_455337_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	4.4e-52	32.4
WP_012863931.1\|455323_456385_+	phosphoribosylformylglycinamidine cyclo-ligase	A0A1D7SQF5	Cyanophage	4.2e-63	42.6
WP_012863932.1\|456377_457001_+	phosphoribosylglycinamide formyltransferase	E3SNR5	Prochlorococcus_phage	5.7e-20	32.1
WP_012863933.1\|457027_458557_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	Q58MG4	Prochlorococcus_phage	2.1e-76	52.7

DBSCAN-SWA_3

1193930 : 1202194

uncultured_virus(33.33%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004696035.1\|1193930_1194674_-	Fe-S cluster assembly ATPase SufC	G9BWD6	Planktothrix_phage	1.9e-09	25.4
WP_012864451.1\|1194968_1196225_-	diaminopimelate decarboxylase	NA	NA	NA	NA
WP_004696040.1\|1196288_1196705_-	DoxX family protein	D2X5Z2	uncultured_marine_phage	3.5e-05	33.9
WP_012864452.1\|1197038_1198664_-	chaperonin GroEL	A0A219YK78	uncultured_virus	4.3e-160	57.2
WP_004696047.1\|1198776_1199058_-	co-chaperone GroES	A0A221S3C8	uncultured_virus	2.0e-17	52.7
WP_012864453.1\|1199189_1199768_-	response regulator	Q6XM27	Feldmannia_irregularis_virus	5.1e-07	27.8
WP_012864454.1\|1199768_1201160_-	sensor histidine kinase	NA	NA	NA	NA
WP_012864455.1\|1201162_1202194_-\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	2.6e-70	43.4

DBSCAN-SWA_4

1361374 : 1371903

uncultured_phage(42.86%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012864565.1\|1361374_1362478_-	Nif3-like dinuclear metal center hexameric protein	A0A1E1EXH0	Acanthamoeba_castellanii_mimivirus	1.0e-11	36.8
WP_012864566.1\|1362498_1363221_-	SAM-dependent methyltransferase	NA	NA	NA	NA
WP_012864567.1\|1363553_1364117_-	GTP cyclohydrolase I	S4U0J3	uncultured_phage	9.3e-62	67.2
WP_012864568.1\|1364203_1364947_-	4Fe-4S cluster-binding domain-containing protein	S4TZT1	uncultured_phage	1.5e-54	48.2
WP_012864569.1\|1364933_1365272_-	6-carboxytetrahydropterin synthase QueD	S4U060	uncultured_phage	2.6e-43	69.6
WP_004696398.1\|1365477_1366638_-	RNA polymerase sigma factor RpoD	F4YCU2	Synechococcus_phage	9.3e-40	37.6
WP_012864570.1\|1366666_1368439_-	DNA primase	A0A0K1LMQ9	Caulobacter_phage	2.8e-56	36.6
WP_038125528.1\|1368696_1370202_-	ribonuclease Y	NA	NA	NA	NA
WP_042466790.1\|1370416_1370860_-	regulatory protein RecX	NA	NA	NA	NA
WP_008601363.1\|1370862_1371903_-	recombinase RecA	A0A0S2MVG1	Bacillus_phage	9.6e-121	63.6

DBSCAN-SWA_5

1429514 : 1438985

Klosneuvirus(16.67%)

tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012864606.1\|1429514_1432172_-\|tRNA	valine--tRNA ligase	A0A1V0SK04	Klosneuvirus	2.9e-169	41.4
WP_012864607.1\|1432192_1433083_-	twin-arginine translocase subunit TatC	A0A1B1IVR7	uncultured_Mediterranean_phage	4.0e-19	28.9
WP_012864608.1\|1433084_1434056_-	polyprenyl synthetase family protein	A0A1V0SE37	Indivirus	2.5e-06	23.8
WP_012864609.1\|1434052_1434751_-	YihA family ribosome biogenesis GTP-binding protein	NA	NA	NA	NA
WP_012864610.1\|1434750_1437060_-	endopeptidase La	A0A0R6PGP8	Moraxella_phage	1.5e-177	44.7
WP_038125529.1\|1437125_1438358_-\|protease	ATP-dependent protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	9.9e-141	62.7
WP_012864611.1\|1438391_1438985_-	ATP-dependent Clp endopeptidase proteolytic subunit ClpP	A0A223W000	Agrobacterium_phage	4.0e-55	53.9

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_013520

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CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

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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

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