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_009253	Desulfotomaculum reducens MI-1, complete genome	5 crisprs	cas3,cas6,cas8b1,cas7b,cas5,cas4,cas1,cas2,csa3,c2c10_CAS-V-U3,cas8c,cas7,RT,WYL,cas10,csm2gr11,csm3gr7,csm4gr5,csx1,DinG,DEDDh	1	13	9	1

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_009253_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009253_1

586379-587743

TypeI

Consensus_repeat	Method
GTTATCAGCCTACCTATAAGGAATTGAAAC	PILER-CR
GTTATCAGCCTACCTATAAGGAATTGAAAC	CRISPRCasFinder
NNNNNNNNNNGTTATCAGCCTACCTATAAGGAATTGAAAC	CRT

20 spacers

cas3,cas5,cas7b,cas8b1,cas6,cas4,cas1,cas2

The CRISPR arrays of NC_009253_1

>merge|NC_009253|1|586379-587743|PILER-CR,CRISPRCasFinder,CRT
GTTATCAGCCTACCTATAAGGAATTGAAACCCGTATTTTTAGGAAGCAGGGATCAAAGCACAAAAGAGTTATCAGCCTACCTATAAGGAATTGAAACTCCCTATCCTTGGCAGTATCGTTTTCTGGAGGTACTGTGTTATCAGCCTACCTATAAGGAATTGAAACATTGTTTCAAGGCTTGGTTGCAATTTTCCGGTTTCGTTATCAGCCTACCTATAAGGAATTGAAACACAATTACGAAAACGTATTAGTTACCGAGGAAAATATTGGTTATCAGCCTACCTATAAGGAATTGAAACAATATCAAGATGCTTTAAAACTAGGCGTTAAATTTGGTTATCAGCCTACCTATAAGGAATTGAAACGTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCACGTTATCAGCCTACCTATAAGGAATTGAAACCACCATGCCGGGGCTAGGTTTACAAAGATTAGCATACGTTATCAGCCTACCTATAAGGAATTGAAACATTTACCAATAAATGTATATTATATAATTTGAATATAGGTTATCAGCCTACCTATAAGGAATTGAAACATTTGAGTCTGCTGCACTCAATTTTCGGAGGGTATAGTTATCAGCCTACCTATAAGGAATTGAAACCTACATAATATATAAATTATGTAGCGAGTTATCAGCCGTTATCAGCCTACCTATAAGGAATTGAAACGTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCAGTTATCAGCCTACCTATAAGGAATTGAAACCAAAAGATAAAAATAATAGTATCATTTAATCAGGGGTTATCAGCCTACCTATAAGGAATTGAAACATGCCCGTCCGGTAGAAGAACCAGCAGGCAAACATCCGTTATCAGCCTACCTATAAGGAATTGAAACATACTTTTATGCAGTCGATGTTTTCTTCGGTGACACGGGTTATCAGCCTACCTATAAGGAATTGAAACATAATATTAGGGATTGCAATATACAAGTTTGGTCTTCTCCGTTATCAGCCTACCTATAAGGAATTGAAACTTGTGCCTACCCTGTTATGTAGAGTAAGCACTAAAAAGTTATCAGCCTACCTATAAGGAATTGAAACCTATTTTTTGGTTGGTGTTTGTCATTGTTATGCACGTTATCAGCCTACCTATAAGGAATTGAAACGTAATATTGCATACGAATTTCTTCATGGTATCATCCGTTATCAGCCTACCTATAAGGAATTGAAACGAAATATCCAAAAAGCTTTAGAAAAACGGCTAGAGAGTTATCAGCCTACCTATAAGGAATTGAAACTTGGCAAGTACGCTTTAAATTCCGGTGAGAAGATCGTTATCAGCCTACCTATAAGGAATTGAAAC

>NC_009253|1|1|586379-587743|PILER-CR
GTTATCAGCCTACCTATAAGGAATTGAAAC	CCGTATTTTTAGGAAGCAGGGATCAAAGCACAAAAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TCCCTATCCTTGGCAGTATCGTTTTCTGGAGGTACTGT
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTGTTTCAAGGCTTGGTTGCAATTTTCCGGTTTC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ACAATTACGAAAACGTATTAGTTACCGAGGAAAATATTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	AATATCAAGATGCTTTAAAACTAGGCGTTAAATTTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	CACCATGCCGGGGCTAGGTTTACAAAGATTAGCATAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTACCAATAAATGTATATTATATAATTTGAATATAG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTGAGTCTGCTGCACTCAATTTTCGGAGGGTATA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTACATAATATATAAATTATGTAGCGAGTTATCAGCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CAAAAGATAAAAATAATAGTATCATTTAATCAGGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATGCCCGTCCGGTAGAAGAACCAGCAGGCAAACATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATACTTTTATGCAGTCGATGTTTTCTTCGGTGACACGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATAATATTAGGGATTGCAATATACAAGTTTGGTCTTCTCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGTGCCTACCCTGTTATGTAGAGTAAGCACTAAAAA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTATTTTTTGGTTGGTGTTTGTCATTGTTATGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTAATATTGCATACGAATTTCTTCATGGTATCATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GAAATATCCAAAAAGCTTTAGAAAAACGGCTAGAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGGCAAGTACGCTTTAAATTCCGGTGAGAAGATC
GTTATCAGCCTACCTATAAGGAATTGAAAC

>NC_009253|1|1|586379-587743|CRISPRCasFinder
GTTATCAGCCTACCTATAAGGAATTGAAAC	CCGTATTTTTAGGAAGCAGGGATCAAAGCACAAAAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TCCCTATCCTTGGCAGTATCGTTTTCTGGAGGTACTGT
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTGTTTCAAGGCTTGGTTGCAATTTTCCGGTTTC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ACAATTACGAAAACGTATTAGTTACCGAGGAAAATATTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	AATATCAAGATGCTTTAAAACTAGGCGTTAAATTTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	CACCATGCCGGGGCTAGGTTTACAAAGATTAGCATAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTACCAATAAATGTATATTATATAATTTGAATATAG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTGAGTCTGCTGCACTCAATTTTCGGAGGGTATA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTACATAATATATAAATTATGTAGCGAGTTATCAGCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CAAAAGATAAAAATAATAGTATCATTTAATCAGGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATGCCCGTCCGGTAGAAGAACCAGCAGGCAAACATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATACTTTTATGCAGTCGATGTTTTCTTCGGTGACACGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATAATATTAGGGATTGCAATATACAAGTTTGGTCTTCTCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGTGCCTACCCTGTTATGTAGAGTAAGCACTAAAAA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTATTTTTTGGTTGGTGTTTGTCATTGTTATGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTAATATTGCATACGAATTTCTTCATGGTATCATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GAAATATCCAAAAAGCTTTAGAAAAACGGCTAGAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGGCAAGTACGCTTTAAATTCCGGTGAGAAGATC
GTTATCAGCCTACCTATAAGGAATTGAAAC

>NC_009253|1|1|586379-587743|CRT
GTTATCAGCCTACCTATAAGGAATTGAAAC	CCGTATTTTTAGGAAGCAGGGATCAAAGCACAAAAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TCCCTATCCTTGGCAGTATCGTTTTCTGGAGGTACTGT
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTGTTTCAAGGCTTGGTTGCAATTTTCCGGTTTC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ACAATTACGAAAACGTATTAGTTACCGAGGAAAATATTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	AATATCAAGATGCTTTAAAACTAGGCGTTAAATTTG
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	CACCATGCCGGGGCTAGGTTTACAAAGATTAGCATAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTACCAATAAATGTATATTATATAATTTGAATATAG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATTTGAGTCTGCTGCACTCAATTTTCGGAGGGTATA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTACATAATATATAAATTATGTAGCGA
GTTATCAGCCGTTATCAGCCTACCTATAAG	GAATTGAAACGTTTTTTGTTCCAATTGTGCCCCAAAACTTGGGGCA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CAAAAGATAAAAATAATAGTATCATTTAATCAGGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATGCCCGTCCGGTAGAAGAACCAGCAGGCAAACATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATACTTTTATGCAGTCGATGTTTTCTTCGGTGACACGG
GTTATCAGCCTACCTATAAGGAATTGAAAC	ATAATATTAGGGATTGCAATATACAAGTTTGGTCTTCTCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGTGCCTACCCTGTTATGTAGAGTAAGCACTAAAAA
GTTATCAGCCTACCTATAAGGAATTGAAAC	CTATTTTTTGGTTGGTGTTTGTCATTGTTATGCAC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GTAATATTGCATACGAATTTCTTCATGGTATCATCC
GTTATCAGCCTACCTATAAGGAATTGAAAC	GAAATATCCAAAAAGCTTTAGAAAAACGGCTAGAGA
GTTATCAGCCTACCTATAAGGAATTGAAAC	TTGGCAAGTACGCTTTAAATTCCGGTGAGAAGATC
GTTATCAGCCTACCTATAAGGAATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009253.1\|WP_011876924.1\|590920_591463_+\|NYN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350235
NC_009253.1\|WP_011876928.1\|592971_593232_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|223672
NC_009253.1\|WP_011876929.1\|593434_594391_+\|permease	unknown	unknown	gnl\|CDD\|223773
NC_009253.1\|WP_011876927.1\|592708_592948_+\|thioredoxin-family-protein	unknown	unknown	gnl\|CDD\|379063
NC_009253.1\|WP_011876917.1\|580077_582114_+\|CRISPR-associated-protein	cas8b1	pfam09484_cas8b1_CAS-I-B	gnl\|CDD\|187861
NC_009253.1\|WP_156779570.1\|591633_591831_+\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_011876923.1\|589366_589630_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_009253.1\|WP_156779711.1\|587836_588331_+\|CRISPR-associated-protein-Cas4	cas4	pfam01930_cas4_CAS-I	gnl\|CDD\|366863
NC_009253.1\|WP_011876915.1\|577858_579094_+\|IS1182-like-element-ISDre5-family-transposase	unknown	unknown	gnl\|CDD\|376573
NC_009253.1\|WP_011876920.1\|583829_586181_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124
NC_009253.1\|WP_011876909.1\|568330_569428_-\|HNH-endonuclease	unknown	unknown	gnl\|CDD\|238038
NC_009253.1\|WP_041274407.1\|573772_574354_+\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_011876916.1\|579303_580062_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	COG1583_cas6_CAS-I:CAS-III:CAS-IV	gnl\|CDD\|224499
NC_009253.1\|WP_011876914.1\|575896_576697_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|225806
NC_009253.1\|WP_011876918.1\|582113_583103_+\|type-I-B-CRISPR-associated-protein-Cas7/Csh2	cas7b	pfam05107_cas7b_CAS-I-B:CAS-I-C	gnl\|CDD\|377458
NC_009253.1\|WP_011876919.1\|583104_583833_+\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cls001430_cas5_CAS-I-B	gnl\|CDD\|187823
NC_009253.1\|WP_011876926.1\|592245_592446_+\|DUF882-domain-containing-protein	unknown	unknown	gnl\|CDD\|311960
NC_009253.1\|WP_011876922.1\|588349_589342_+\|type-I-B-CRISPR-associated-endonuclease-Cas1	cas1	cd09722_cas1_CAS-I-B	gnl\|CDD\|187853
NC_009253.1\|WP_011876910.1\|569452_571669_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|238045
NC_009253.1\|WP_011876925.1\|591880_592099_+\|DUF2922-domain-containing-protein	unknown	unknown	gnl\|CDD\|378571

Protein	Function_ID	Function_description	E-value
NC_009253.1\|WP_011876924.1\|590920_591463_+\|NYN-domain-containing-protein	gnl\|CDD\|350235	cd10911, PIN_LabA, PIN domain of Synechococcus elongatus LabA (low-amplitude and bright) and related proteins. This subfamily contains Synechococcus elongatus PCC 7942 LabA which participates in cyanobacterial circadian timing, it is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system, and appears to be necessary for KaiC-dependent repression of gene expression. This subfamily belongs to the LabA-like domain family which includes the N-terminal domain of limkain b1, a human autoantigen localized to a subset of ABCD3 and PXF marked peroxisomes. Also included in the LabA-like domain family are human ZNF451, uncharacterized Bacillus subtilis YqxD, uncharacterized Escherichia coli YaiI, and the N-terminal domain of a well-conserved group of mainly bacterial proteins with no defined function, which contain a C-terminal LabA_like_C domain. Curiously Pseudomonas putida S16 NicB , which is described as a putative NADH-dependent hydroxylase involved in the microbial degradation of nicotine also falls into the LabA-like family. The PIN (PilT N terminus) domain belongs to a large nuclease superfamily. The structural properties of the PIN domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions; in some members, additional metal coordinating residues can be found while some others lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	7.83482e-33
NC_009253.1\|WP_011876928.1\|592971_593232_+\|hypothetical-protein	gnl\|CDD\|223672	COG0599, COG0599, Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown].	1.12157e-05
NC_009253.1\|WP_011876927.1\|592708_592948_+\|thioredoxin-family-protein	gnl\|CDD\|379063	pfam13192, Thioredoxin_3, Thioredoxin domain.	7.75666e-26
NC_009253.1\|WP_011876917.1\|580077_582114_+\|CRISPR-associated-protein	gnl\|CDD\|187861	cd09730, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Large proteins, some contain Zn-finger domain; signature gene for I-A subtype; also known as TM1802 family.	1.0313e-22
NC_009253.1\|WP_011876923.1\|589366_589630_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	9.3362e-32
NC_009253.1\|WP_156779711.1\|587836_588331_+\|CRISPR-associated-protein-Cas4	gnl\|CDD\|366863	pfam01930, Cas_Cas4, Domain of unknown function DUF83. This domain has no known function. The domain contains three conserved cysteines at its C-terminus.	1.01534e-77
NC_009253.1\|WP_011876915.1\|577858_579094_+\|IS1182-like-element-ISDre5-family-transposase	gnl\|CDD\|376573	pfam01609, DDE_Tnp_1, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. This family contains transposases for IS4, IS421, IS5377, IS427, IS402, IS1355, IS5, which was original isolated in bacteriophage lambda.	3.26952e-18
NC_009253.1\|WP_011876920.1\|583829_586181_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	9.05017e-49
NC_009253.1\|WP_011876909.1\|568330_569428_-\|HNH-endonuclease	gnl\|CDD\|238038	cd00085, HNHc, HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.	1.08277e-08
NC_009253.1\|WP_011876929.1\|593434_594391_+\|permease	gnl\|CDD\|223773	COG0701, COG0701, Predicted permeases [General function prediction only].	3.11973e-67
NC_009253.1\|WP_011876916.1\|579303_580062_+\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|224499	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	1.53516e-42
NC_009253.1\|WP_011876914.1\|575896_576697_+\|AAA-family-ATPase	gnl\|CDD\|225806	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion].	5.54405e-33
NC_009253.1\|WP_011876918.1\|582113_583103_+\|type-I-B-CRISPR-associated-protein-Cas7/Csh2	gnl\|CDD\|377458	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7. CRISPR-associated protein Cas7 is one of the components of the type I-B cascade-like antiviral defense complex. In Haloferax volcanii, Cas5, Cas6 and Cas7 form a small complex that aids the stability of CRISPR-derived RNA.	8.77999e-49
NC_009253.1\|WP_011876919.1\|583104_583833_+\|type-I-B-CRISPR-associated-protein-Cas5	gnl\|CDD\|187823	cd09692, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	1.82329e-30
NC_009253.1\|WP_011876926.1\|592245_592446_+\|DUF882-domain-containing-protein	gnl\|CDD\|311960	pfam08291, Peptidase_M15_3, Peptidase M15.	1.9447e-10
NC_009253.1\|WP_011876922.1\|588349_589342_+\|type-I-B-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|187853	cd09722, Cas1_I-B, CRISPR/Cas system-associated protein Cas1. 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; Cas1 is the most universal CRISPR system protein thought to be involved in spacer integration; Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	5.36384e-173
NC_009253.1\|WP_011876910.1\|569452_571669_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.48461e-08
NC_009253.1\|WP_011876925.1\|591880_592099_+\|DUF2922-domain-containing-protein	gnl\|CDD\|378571	pfam11148, DUF2922, Protein of unknown function (DUF2922). This bacterial family of proteins has no known function.	7.14566e-21

>NC_009253.1|WP_011876920.1|583829_586181_+|CRISPR-associated-helicase/endonuclease-Cas3
MTEQLKSHPHLFLHQHIEQVNQATKAIRDWHTTDTITNDIKLLLGHLAKYHDLGKGTPAFQEYIENPEGYQGDPQEKAHSTLSLLLTLAIARQQSWEELHTLVIAAAVAGHHSRLPTIPEKKIGGVCCPQWDIDGFAGGEKASLLKRQLASIDFPALEQETKVEFGSYGLAQALQSDPAKSLREMKRFLITRIYGIFASLSLEEALRLRMKAQLLYSVLLEADKALLAVSSPEVYLNREVRHWQSRWVEDKIGKPPETSINQLRQRARQGVIAALEAKNTNLYSLTAPTGCGKTMLAATWALKLRERVTEGQAPPKIIIVLPFLSVIDQTAREYARLLSHSGQETDGRWLIQSHSLADRHYARGLEDEDGRFFIDTWRSEIIITTYDQFLMSLLDPRAKYQMRFHNLCDAMIIMDEVQALPCKLWQTLEKVFQALASEGNSRLLLMSATLPPFMKEALPLLPDYQGYFTLFNRYTLQLRLQESQTLDNFCEEMSDRLIGWLECSNRILITLNTRHSARRVRDFLSQSWPAEYGDVPLFFISADVTPKDRLEIVKQIKQGKPCVVVSTQCIEAGVDIDMDRVIRDFGPLDSIIQIAGRCNREGLRAQGVVEVVDLINEQDKRYSEMIYDTTHLQITRKILADKQEIQEKEIITLSTQYFKDLTEQKDTGYNHLIRFAKWQEDTPVKELLRGKERLQIDFLVLEQDAELRDEMQIVGRIKDRWERREAWRKLSGRIALVSVSIFAQPGFHPEQIADEFMGSWWVVREGYYNSKQGLLIEGETMIL
>NC_009253.1|WP_011876919.1|583104_583833_+|type-I-B-CRISPR-associated-protein-Cas5
MMKLIAFRLSGRFGHFLRAEAGTSALSYPVPPRTVLLGILGAVLGLEKDLPQELLEPLHIALAGPVPQSHWHKAKLRKDPPEALPQVVKNNQKQEKTTKPEMATLITQEWLFNPAYTIWVALPEPYHQQLEQRLKERCWHFQPCLGLSEMMADIEYLGTLMAEKLPRGSYPVTSIIPQEQAKLDLTQVYDQELALQPLRMPRTVTSSRVFGHSSYFIETKGHPVMVETEQAYQVGDRVLMFI
>NC_009253.1|WP_011876918.1|582113_583103_+|type-I-B-CRISPR-associated-protein-Cas7/Csh2
MEKQVNTLSGRKEFLFLYDIKMGNPNGDPDENRPRVLPDGTYYVTDVRLKRYSRDFLKQLGHAILVDNIEGRTTNLTGRVAYYLNKTGQEKAEGSQLVDILLDSFIDARIFGSSLAFKAEKVKDAKGKETTWEPKPEPKTLTGATQINMGEVLHQAESVDIHGTSFFGSDDSKTQGTFTTFYGLRYALIGFSGIANQHSAKTSHMSDNDYDLLLKSMWHGVRSAANTRTKVGQIPHLLISIEYNEGEEFQFGRLHDYVKLLAGDDKEEKSWASPEDYKVDLAKLIERIEGQSQRIKNVRYAVSPDLQLLQEIPVKWQLMDIENVTKAVE
>NC_009253.1|WP_011876917.1|580077_582114_+|CRISPR-associated-protein
MIEAMRTLALDYLVQELAGYPVPQDPEQWYQEFRKNSPGRMFPYLVEDSGRIEKVYLLEEKATGVVELTVQDMIHEPGGSRVGCTQDKLPFIKPPGSQSPQMGPVIKRSYQSGKSGPSAKILNTTMKSFAEIASDNKPWSSYFKQIVEILSAPRLKLVDHSTVDWQQEGYANLLDCVVQRIGPEKNTVFLAVKDRNGRLPGEVSEYIDYLLGEKLAGERYVTSEARAQEDGECPLCNATKVTVFPNALKGAGINFKNTDRIGVFPGVNPAQAWKGYALCGACADLLYVYKHHVIKKGGPNKDRQFFGSKIAGDSALVIPVFFPGLAAEVRQELLSDVTDYINNMNSNVTQDEESLLDILKDEKSILSLIFLWADVGQNLENVTGMIHSVLPSRLRELSLLNEASRNWHHPLFPNVPLAIETADFRPDLSLRALKVLFYRPGGKKAKDINASKQLFQVKKQLAACVYHRTPVLLERFWQETITTARWHWLEASQKKDGYTGLLYEGTGKNGSYLTPAGWIKHVNWWLYYFKQVGVMEMEKQFYKPAMAELQPYFGSQSGIDTPEKAYAFLLGVLYGRLLMIQGGKGVNVGANALTWLKRLTLKGKDLPELYTKIRSKILAYEAEKSQAVRELITEISTLGIALGDNIKLSEVQTNYYLLLGQAMTTVILSKKTEKENEA
>NC_009253.1|WP_011876916.1|579303_580062_+|CRISPR-associated-endoribonuclease-Cas6
MRLQLLLDSENPVLLATNYQQQIQGLIYNLLTDPLMQAFLHDHGFDYNQRRFKLFTFSRLMGKSYFNQQDKTLRITPPVLLYISSPWTEFLENLANSLLARGFIQIGKNQLQVKEIKLAVTPPFNQDQSYPVKMLSPVTMYSTLETREGSKKTYYYSPTEREFTRLIAQNLVKKASAFYGEDWSKLFFCIEVANSFRASQQKIIIYKGTVIKGWLGNYHISGHPKMLKLAYESGIGSKNSQGFGLFELCNNG
>NC_009253.1|WP_011876915.1|577858_579094_+|IS1182-like-element-ISDre5-family-transposase
MYLLQPNLFSFEELLKFEPETKLQKVLSVLDLSPALNVVKRAVLGPKGHCVGNMIRALVAKQLEQIPTVAALVKRLSNDIRFRFQCGFSLSKPIPSESTFSRLIQKLAATDETNKTESVMKQIFDNLVKSAKDMGLIDSNCVAIDSSKIDAYEKSKPKKDLQGDKTANWGAKRDTHGNQISWFGYKAHVAVDCHSELPIAIMVTPANTHDAKMAIPLIELVNKALEDSKKPKYYTMDMGYDSKDIYSVVMNDFNAQAIIPINSRGSKDHPEGCDFDGTPICSMGQRMVFWGSDAKAGTNKYRCPHVMGKCDCPYGSAWCSPSSYGLVVKTKVKDDPRMNCIPARGTKNWQSLYNKRTSVERCFGRLKQHLGANSIRTRGLEKVTLHITLSCIALLAGSIAVAKTKRIEQAA
>NC_009253.1|WP_011876914.1|575896_576697_+|AAA-family-ATPase
MFTQFFGLKFNPFSKEVPADKLFISQDLLELESRLKYLQSTRGIGLVAGEPGAGKSTALRKFVNELNPALYKHCYFSLATVTVLEFYQGLALELGEQPKHKKVAIFRQIQGAINSMYYERRITPVIILDEIHLASNKLLEDLRLIFNFKMDSQNPFILVLAGQPLIRSKLSLNINNPLRQRLVVKHIMQGLKPEEIRDYCTSRLKQAGLIEEIFTDSAIDAIYATTKGLPRLINNLVTNCLLYAYYKKLRQIDEEVVYQAQNELNI
>NC_009253.1|WP_041274407.1|573772_574354_+|hypothetical-protein
MQLIFDSKTTPKQYYQCGYEYSFPKPYTCLHPDCKIPVPPRPHGYYIRNVITLGFNGRILIRRYYCKYCGHTFSYLPSFCLPYFQYSLVTIFLALLWHYLNLIPLLKVLTSRLQWQRQHLQFYRRRFKANLKFIKAVLRQMMPQVILPKEDDIKKEARKVLIIVKTGFGQIQAFSTRFFTQSNNTFMASRKLA
>NC_009253.1|WP_011876910.1|569452_571669_-|helix-turn-helix-domain-containing-protein
MSDDFDLKGYRENKLKITQAELASWLGVTQDYISKIENGNISVGLDFLLKFCNAVGDTPDGVLNFKLNNPGPLEIGDVYKEIKLKKKMLDLHVQPRIEKFNYDENNYGTALTKIDELYDIINIYGSKPLVAFLGPSDAGKSRLINILTGLDVLLAQWTPTTAATVYLKHIEDKPKWMGSDDVWVFKAESEEKGWDFRRYYDPDYCNQYKVFSGGLEILTKYCNRHTENLYKQVDSAVVYLESEILKACDIVDLPGFGTDNHRDTAQAQRAREKADVVVFLCQSNGFLNHENDLIFLKNVIQCLPPVNLSTNLPVLSNLMIVASQAHIVGESQVENLFRRGYTALDNQLNEGVIRSVFKISKPEFLSQLKNRFFSYSIESTNLRKDFVAELKRLLEEVLPVLRNKLLNNAIQEFINNTGELFADETKKFQLALNERETTKKIYEKKLQGKPRLYAQIQDGREKIIDLIEYLKKEDCQKLKTWEEKNITVKTIEKIIEDKKYTKKQAQQYLASNITDLYFVELQNIVSRSSEVFARESKKLFADIEKTSNEFNKLPMGQVDIPFDFKGAMAGGLAGATVLGGLSVMAASMGNLGGYILVAKGVSVLSAMGVSVGGTAAAASAVAALGGPITIGLALAATAYVLIQAFFGESWKTRLAKQVKEALTKEKVLENYSNEVVKFWDETKTAFLSLVDTIINKYEEHLLDLKVIIETYNEVELRDKVRKSWEMKHFFEEIPWDQS
>NC_009253.1|WP_011876909.1|568330_569428_-|HNH-endonuclease
MFESTAKNILSGISDTTKKVVNEAVDFIEEATRENKLTGAVREVGTSVIDVTNNTLHKVVEVADGSMDVVKGVVQGDDFTRDDGFCKIKDAVTETTEKIGSGIMLTFEAGGKTIKGLVESGSAALNGGDVQVGLDKAIDGATQITKTLAVGGLALGALDVLDLPTDDIDGFQEEAELPGGDASDIGIEQMADSKDVPHITHIVSDWSNPINTPHLFSVQDAEAADFAQEPISIDNLIAMPADPDGLTVELDYEPGEGLLPEVSVDEIEGVENGMASDEAFDQLIDIGCVEDTTHIEDPPRSDAAVRSFLNKYGYEQTPEGYEVHHIIPLSEGGADSPDNMVLVTEEMHDDITAAQRDYYGWGRDN
>NC_009253.1|WP_156779711.1|587836_588331_+|CRISPR-associated-protein-Cas4
MVPVTGTLIWYYYICQREVWLIGHQITPDQSDSNISLGRYIHENSYDRERKELVIGHSKMDVFRVSNGELVVGEVKKSSKYSQSARMQLAFYLMELQDRGIKARGELRFPQEKKLEEVVLDENILEELGRASQAITQILSLQRPPEPKKINFCKNCAYAEFCWA
>NC_009253.1|WP_011876922.1|588349_589342_+|type-I-B-CRISPR-associated-endonuclease-Cas1
MKKTIYIFSDGELHRKDNTLCFEKEKEKRYIPIEDTGEIMAFGEININKRLLEFLSQKEILLHYFNHYGYYMGTFYPREHLNSGFMILKQAEHYMDQTLRLKIAIEYIRGGGKNIRQVLKYYQGRGRYVGDKLEAIEKLLLDIDQQQDIPSLMAVEGNIRSWYYKGFDDIICDTNFVFEERSRRPPKNFLNTLISFGNSIMYSICLSEIYKTHLDPRIGYLHATNFRRFSLNLDVSEIFKPILIDRTIFSLLARKMITAKDFDRDANGVLLKEKGKKCFIHALEEKLKTTINHRDLGRPVSYRRLIRLELYKLEKHLMGEKTYTPFIARW
>NC_009253.1|WP_011876923.1|589366_589630_+|CRISPR-associated-endonuclease-Cas2
MFVILVYDVNQKRVAKVLKRCRQYLTWVQNSVLEGEISDVNLKKLKMELQKIINKEEDSVIFYTMRTTNYSSRELIGLQKNEEGNII
>NC_009253.1|WP_011876924.1|590920_591463_+|NYN-domain-containing-protein
MKRVMVFIDGNNFEKAVTNLYSGSQQRIDYSKLANYLAGKRNGNLQRLYYYTAASNNDKQKAASTKNFVDTLNKQVPNCIAKIGYLQVVGKDASGQDIYTEKGTDVNIAVDLVSLAFFNAYDEAILLSADTDYEPAVNMVRQFGKTVVLGIVDRQKAGYLKGLCDDHISLQIADLDQVKR
>NC_009253.1|WP_156779570.1|591633_591831_+|hypothetical-protein
MPPIFFCNHGDGAGAVKGGVQCSVREWSRPATDQDLYDVATAINSLQNNALVGVFRADDSELINE
>NC_009253.1|WP_011876925.1|591880_592099_+|DUF2922-domain-containing-protein
MTKTLELIFVNVAGDKVTLRVTDPRDDLQEAEVRTVMDTVVAKNVFTSSGGSLTGVAGARLVTRDVSELNIL
>NC_009253.1|WP_011876926.1|592245_592446_+|DUF882-domain-containing-protein
MGGVADSYHIKGMAADIRVPGLVVAELGRLAEQAGFEGIGTYPTQVFVHVDIRYNSARWEAQPVKR
>NC_009253.1|WP_011876927.1|592708_592948_+|thioredoxin-family-protein
MEIKVLGTGCQKCKEVEKLVREVLAEINVPANVEKVEDIAQIVQYGVMLTPGLVINGKVKVSGRVPNKADIKKLIEEEK
>NC_009253.1|WP_011876928.1|592971_593232_+|hypothetical-protein
MGANLDAKTLALIGVGASVGANCFPCLEQKVTEALKAGASVEEIAQAVQLGEEAKMQPNQGIKALAEMLLQNAQSLLDRGSAGGCG
>NC_009253.1|WP_011876929.1|593434_594391_+|permease
MFDWLDYLMQLLVTNVFGLSMQSRTGASVHFFFYDTIKIIILLGVMIFAISYIRSYFPPERTKRILTRFSGITGNIMASLLGSVTPFCSCSSVPLFIGFVEAGIPLGVTFSFLITSPIVNEAAFAILIGSFGVKIAAIYIVAGTILGVLGGLVIGKMKMEDQIEEYVKQIKMGETEIQELTTQDRIAFAKGQVVDIVKRVWLYILIGVGIGAFIHGYAPAELLAKYAGPQNPFAVIVAVILGVPLYSNALGTIPIAEALINKGVGFGTAMAFMMATTALSLPEMIILRKVIKPRLIASFVVVTSIGIIIIGYLFNFLV

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Crispr_ID: NC_009253_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009253_2

1079904-1083390

TypeI

I-C

Consensus_repeat	Method
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	PILER-CR
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CRISPRCasFinder
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CRT

52 spacers

cas2,cas1,cas4,cas7,cas8c,cas5,cas3

The CRISPR arrays of NC_009253_2

>merge|NC_009253|2|1079904-1083390|PILER-CR,CRISPRCasFinder,CRT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAACGCATTAATTACCCCCCTTTGTCCAAACTGTGATACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAATAATAGCCCTGGTTACCTAGAAGCAATAAGGCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACACCGCCTCATTGTCAGTGGTTATTATGCAATGTAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACGTTAATGGCATGGTTCTATGCTGGCCTACAGGGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAGAAGATAATTTGTTCAATATGCTTGCTGATAAAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTATCTATAGAATTTTTAATATGTTCTTTTAACTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTTAGTAAACCATTTTCAAGAATATATAAAGCAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACACTTTGGATTGCTTTGAATTGCTAGGTTTTTTGAAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTCCATTGTTCTATTTCTGTATCCTGGAAAATTTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTCCATTGTTCTATTTCTGTATCCTGGAAAATTTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAGTAAACACTAAGACAAACAAAGTATATTATATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACACATACAATCACACCACAGACAAATTTAAAACGCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGCGGCAAGAAGTGCCTTTTCAACTGCATTATCAAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACGGAAAGAGGGCATTAATGAGCCGGTCGAAGTCCCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACGTTAATGAACCTGAACTCGAAAATTGGGACGGTAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAAAAATTACCGGACAGACAACAGATTAAATACGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGAAGTTGATGCGTTATCAAGTTGCTGCTTTGATAAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTAGCTCCGTTCATGTCGTACCATTTATTGTTGTGGTATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTAGCTACAATTTTAAGCATCATCTTCCTGTGTTCAATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTCATTGATGCCGTCACCTCTGACATAATGCAACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGAGAAAAAAGGTTACCTTAAAAAAATGATACCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGTACTTCGGCAGGGCATACATTACCCCTTCCTCTGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTTTTGTAGCGACAATAATAATCAATTATCAGAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATACCGGCCCTGGGTGTCAGGAGAAGCGGGAAGAGATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAATGGTACTGCTACTATTTGGTAGGTAGCACTCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAATAATTGCTATGCCTGAGTAAATTCCATGTACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTTCGTAACCAGACCGGGCATATCCGGTCTGGTTAAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGCTTGTGACATTGTTCTTATCCTCCGTAGTTCGTCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTTTGTTCTTTTGTTGTAATCTCCTGTACTTTTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTTTTTCCAAACGCTTTAATTCTACTTCCGCCTCCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTGCACTTTGATATGGTTCTGTAGAATCTTTCATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATCTAAAAGTGATTGTTACTATATTTTATCTGCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAAATTTTACTATATCACCTTTAAATTCTCCTGTGCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGAAGAAGATGGATTATGTGTGATTAGACAAGATAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACCATGTGAAATACATTATGGACTTACATATGAAGATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACCGAAAGAGCATTGGAAATACATTGAATTAGGGTAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACACGTAACTAAAGTTTTTACCATACCATTATTTCACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGATTCGCTCAATACATGACATAACTGCACATGACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAATTAGATCCGGAGGAAATACCGCAAAGTGCGCACCCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAGCTTTCATTAAATCTTTAATACTAGGCTCTATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATATTCGGTTTGATCTAGTTCTGTTGCTATGTCGTCGCCCCACACGCAGGGGCGTGGATTGAAACCTCGAAAAAGTCTTAATTCTACGGTGTTGCGATTGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATCGACTTCAAGCTCAACGCCTAAAAATATATTTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTGTCATAGCATAATTCATTGCAGTGACTACATGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTTATCTGTGAATACTGTCAAGAAATTACTTTAGTGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTTCTTCCAACAGGATATTATTCCATTGCTTATCTTTAGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATTATGTACTATAGTAATTTGCCCTCTTTGGCTCCCGTCGCCCCTCACGCAGGGGCGTGGATTGAAACACTATAACAGATAACAGTCATAACCTACATAACAGTCGCCCCTCACGCAGGGGCGTGGATTGAAACCCTAGACTGCAATACTATACATACCACTTGACAGGTCGCCCCTCACGCAGGGGCGTGGATTGAAACTGATTACTATTATCAACGAGTAAAAAATTTACGTCGCCCCTCACGCAGGGGCGTGGATTGAAACGGTGATGGTGCTATCTTCGTTTGTGACTATGTGATGTCGCCCCTCACGCAGGGGCGTGGATTGAAACATATTCGCCCGCGATACCGGCCCCTTTCACTGTAGTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

>NC_009253|2|2|1079904-1083390|PILER-CR
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GCATTAATTACCCCCCTTTGTCCAAACTGTGATAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATAGCCCTGGTTACCTAGAAGCAATAAGGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACCGCCTCATTGTCAGTGGTTATTATGCAATGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGGCATGGTTCTATGCTGGCCTACAGGG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGAAGATAATTTGTTCAATATGCTTGCTGATAAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TATCTATAGAATTTTTAATATGTTCTTTTAACT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTAGTAAACCATTTTCAAGAATATATAAAGCA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTTTGGATTGCTTTGAATTGCTAGGTTTTTTGAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGTAAACACTAAGACAAACAAAGTATATTATAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACATACAATCACACCACAGACAAATTTAAAACGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCGGCAAGAAGTGCCTTTTCAACTGCATTATCAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGAAAGAGGGCATTAATGAGCCGGTCGAAGTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGAACCTGAACTCGAAAATTGGGACGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAAAATTACCGGACAGACAACAGATTAAATACG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGTTGATGCGTTATCAAGTTGCTGCTTTGATAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTCCGTTCATGTCGTACCATTTATTGTTGTGGTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTACAATTTTAAGCATCATCTTCCTGTGTTCAAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCATTGATGCCGTCACCTCTGACATAATGCAAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAGAAAAAAGGTTACCTTAAAAAAATGATACC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGTACTTCGGCAGGGCATACATTACCCCTTCCTCTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTTGTAGCGACAATAATAATCAATTATCAGA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATACCGGCCCTGGGTGTCAGGAGAAGCGGGAAGAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATGGTACTGCTACTATTTGGTAGGTAGCACTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATTGCTATGCCTGAGTAAATTCCATGTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCGTAACCAGACCGGGCATATCCGGTCTGGTTAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCTTGTGACATTGTTCTTATCCTCCGTAGTTCGTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTGTTCTTTTGTTGTAATCTCCTGTACTTTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTTTTCCAAACGCTTTAATTCTACTTCCGCCTCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGCACTTTGATATGGTTCTGTAGAATCTTTCAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCTAAAAGTGATTGTTACTATATTTTATCTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAATTTTACTATATCACCTTTAAATTCTCCTGTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGAAGATGGATTATGTGTGATTAGACAAGATA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CATGTGAAATACATTATGGACTTACATATGAAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CGAAAGAGCATTGGAAATACATTGAATTAGGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACGTAACTAAAGTTTTTACCATACCATTATTTCAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTCGCTCAATACATGACATAACTGCACATGAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATTAGATCCGGAGGAAATACCGCAAAGTGCGCACCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGCTTTCATTAAATCTTTAATACTAGGCTCTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGGTTTGATCTAGTTCTGTTGCTATGTC
GTCGCCCCACACGCAGGGGCGTGGATTGAAAC	CTCGAAAAAGTCTTAATTCTACGGTGTTGCGATTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCGACTTCAAGCTCAACGCCTAAAAATATATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGTCATAGCATAATTCATTGCAGTGACTACATG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTATCTGTGAATACTGTCAAGAAATTACTTTAGT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCTTCCAACAGGATATTATTCCATTGCTTATCTTTAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTATGTACTATAGTAATTTGCCCTCTTTGGCTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTATAACAGATAACAGTCATAACCTACATAACA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CCTAGACTGCAATACTATACATACCACTTGACAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTACTATTATCAACGAGTAAAAAATTTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGTGATGGTGCTATCTTCGTTTGTGACTATGTGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGCCCGCGATACCGGCCCCTTTCACTGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

>NC_009253|2|2|1079904-1083390|CRISPRCasFinder
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GCATTAATTACCCCCCTTTGTCCAAACTGTGATAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATAGCCCTGGTTACCTAGAAGCAATAAGGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACCGCCTCATTGTCAGTGGTTATTATGCAATGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGGCATGGTTCTATGCTGGCCTACAGGG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGAAGATAATTTGTTCAATATGCTTGCTGATAAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TATCTATAGAATTTTTAATATGTTCTTTTAACT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTAGTAAACCATTTTCAAGAATATATAAAGCA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTTTGGATTGCTTTGAATTGCTAGGTTTTTTGAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGTAAACACTAAGACAAACAAAGTATATTATAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACATACAATCACACCACAGACAAATTTAAAACGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCGGCAAGAAGTGCCTTTTCAACTGCATTATCAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGAAAGAGGGCATTAATGAGCCGGTCGAAGTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGAACCTGAACTCGAAAATTGGGACGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAAAATTACCGGACAGACAACAGATTAAATACG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGTTGATGCGTTATCAAGTTGCTGCTTTGATAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTCCGTTCATGTCGTACCATTTATTGTTGTGGTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTACAATTTTAAGCATCATCTTCCTGTGTTCAAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCATTGATGCCGTCACCTCTGACATAATGCAAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAGAAAAAAGGTTACCTTAAAAAAATGATACC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGTACTTCGGCAGGGCATACATTACCCCTTCCTCTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTTGTAGCGACAATAATAATCAATTATCAGA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATACCGGCCCTGGGTGTCAGGAGAAGCGGGAAGAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATGGTACTGCTACTATTTGGTAGGTAGCACTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATTGCTATGCCTGAGTAAATTCCATGTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCGTAACCAGACCGGGCATATCCGGTCTGGTTAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCTTGTGACATTGTTCTTATCCTCCGTAGTTCGTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTGTTCTTTTGTTGTAATCTCCTGTACTTTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTTTTCCAAACGCTTTAATTCTACTTCCGCCTCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGCACTTTGATATGGTTCTGTAGAATCTTTCAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCTAAAAGTGATTGTTACTATATTTTATCTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAATTTTACTATATCACCTTTAAATTCTCCTGTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGAAGATGGATTATGTGTGATTAGACAAGATA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CATGTGAAATACATTATGGACTTACATATGAAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CGAAAGAGCATTGGAAATACATTGAATTAGGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACGTAACTAAAGTTTTTACCATACCATTATTTCAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTCGCTCAATACATGACATAACTGCACATGAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATTAGATCCGGAGGAAATACCGCAAAGTGCGCACCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGCTTTCATTAAATCTTTAATACTAGGCTCTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGGTTTGATCTAGTTCTGTTGCTATGTC
GTCGCCCCACACGCAGGGGCGTGGATTGAAAC	CTCGAAAAAGTCTTAATTCTACGGTGTTGCGATTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCGACTTCAAGCTCAACGCCTAAAAATATATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGTCATAGCATAATTCATTGCAGTGACTACATG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTATCTGTGAATACTGTCAAGAAATTACTTTAGT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCTTCCAACAGGATATTATTCCATTGCTTATCTTTAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTATGTACTATAGTAATTTGCCCTCTTTGGCTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTATAACAGATAACAGTCATAACCTACATAACA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CCTAGACTGCAATACTATACATACCACTTGACAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTACTATTATCAACGAGTAAAAAATTTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGTGATGGTGCTATCTTCGTTTGTGACTATGTGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGCCCGCGATACCGGCCCCTTTCACTGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

>NC_009253|2|2|1079904-1083390|CRT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GCATTAATTACCCCCCTTTGTCCAAACTGTGATAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATAGCCCTGGTTACCTAGAAGCAATAAGGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACCGCCTCATTGTCAGTGGTTATTATGCAATGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGGCATGGTTCTATGCTGGCCTACAGGG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGAAGATAATTTGTTCAATATGCTTGCTGATAAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TATCTATAGAATTTTTAATATGTTCTTTTAACT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTAGTAAACCATTTTCAAGAATATATAAAGCA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTTTGGATTGCTTTGAATTGCTAGGTTTTTTGAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCCATTGTTCTATTTCTGTATCCTGGAAAATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGTAAACACTAAGACAAACAAAGTATATTATAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACATACAATCACACCACAGACAAATTTAAAACGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCGGCAAGAAGTGCCTTTTCAACTGCATTATCAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGAAAGAGGGCATTAATGAGCCGGTCGAAGTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GTTAATGAACCTGAACTCGAAAATTGGGACGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAAAATTACCGGACAGACAACAGATTAAATACG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGTTGATGCGTTATCAAGTTGCTGCTTTGATAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTCCGTTCATGTCGTACCATTTATTGTTGTGGTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TAGCTACAATTTTAAGCATCATCTTCCTGTGTTCAAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TCATTGATGCCGTCACCTCTGACATAATGCAAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAGAAAAAAGGTTACCTTAAAAAAATGATACC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGTACTTCGGCAGGGCATACATTACCCCTTCCTCTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTTGTAGCGACAATAATAATCAATTATCAGA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATACCGGCCCTGGGTGTCAGGAGAAGCGGGAAGAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATGGTACTGCTACTATTTGGTAGGTAGCACTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATAATTGCTATGCCTGAGTAAATTCCATGTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCGTAACCAGACCGGGCATATCCGGTCTGGTTAA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGCTTGTGACATTGTTCTTATCCTCCGTAGTTCGTC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTTTGTTCTTTTGTTGTAATCTCCTGTACTTTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTTTTCCAAACGCTTTAATTCTACTTCCGCCTCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGCACTTTGATATGGTTCTGTAGAATCTTTCAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCTAAAAGTGATTGTTACTATATTTTATCTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AAATTTTACTATATCACCTTTAAATTCTCCTGTGC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGAAGAAGATGGATTATGTGTGATTAGACAAGATA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CATGTGAAATACATTATGGACTTACATATGAAGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CGAAAGAGCATTGGAAATACATTGAATTAGGGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACGTAACTAAAGTTTTTACCATACCATTATTTCAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTCGCTCAATACATGACATAACTGCACATGAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AATTAGATCCGGAGGAAATACCGCAAAGTGCGCACCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGCTTTCATTAAATCTTTAATACTAGGCTCTAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGGTTTGATCTAGTTCTGTTGCTATGTC
GTCGCCCCACACGCAGGGGCGTGGATTGAAAC	CTCGAAAAAGTCTTAATTCTACGGTGTTGCGATTG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATCGACTTCAAGCTCAACGCCTAAAAATATATTT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTGTCATAGCATAATTCATTGCAGTGACTACATG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTATCTGTGAATACTGTCAAGAAATTACTTTAGT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TTCTTCCAACAGGATATTATTCCATTGCTTATCTTTAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATTATGTACTATAGTAATTTGCCCTCTTTGGCTCCC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ACTATAACAGATAACAGTCATAACCTACATAACA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CCTAGACTGCAATACTATACATACCACTTGACAG
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	TGATTACTATTATCAACGAGTAAAAAATTTAC
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	GGTGATGGTGCTATCTTCGTTTGTGACTATGTGAT
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	ATATTCGCCCGCGATACCGGCCCCTTTCACTGTA
GTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009253.1\|WP_011877378.1\|1089190_1090042_+\|CBS-domain-containing-protein	unknown	unknown	gnl\|CDD\|341374
NC_009253.1\|WP_011877373.1\|1084431_1085811_-\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_009253.1\|WP_011877383.1\|1093348_1094428_+\|3-dehydroquinate-synthase	unknown	unknown	gnl\|CDD\|234565
NC_009253.1\|WP_011877365.1\|1070286_1071813_+\|cysteine-desulfurase	unknown	unknown	gnl\|CDD\|224029
NC_009253.1\|WP_011877367.1\|1074378_1075044_+\|type-I-C-CRISPR-associated-protein-Cas5	cas5	cd09752_cas5_CAS-I-C	gnl\|CDD\|187534
NC_009253.1\|WP_011876914.1\|1083631_1084432_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|225806
NC_009253.1\|WP_011877364.1\|1067916_1070064_+\|hedgehog/intein-hint-domain-containing-protein	unknown	unknown	gnl\|CDD\|372590
NC_009253.1\|WP_011877377.1\|1088819_1089191_+\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_011877379.1\|1090233_1090737_+\|YqeG-family-HAD-IIIA-type-phosphatase	unknown	unknown	gnl\|CDD\|225090
NC_009253.1\|WP_011877382.1\|1092834_1093368_+\|shikimate-kinase	unknown	unknown	gnl\|CDD\|184412
NC_009253.1\|WP_011877369.1\|1076847_1077714_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	cas7	cd09689_cas7_CAS-I-C	gnl\|CDD\|377458
NC_009253.1\|WP_011877370.1\|1077715_1078375_+\|CRISPR-associated-protein-Cas4	cas4	pfam01930_cas4_CAS-I	gnl\|CDD\|273040
NC_009253.1\|WP_156779604.1\|1059964_1067887_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|375703
NC_009253.1\|WP_011877380.1\|1090783_1091659_+\|shikimate-dehydrogenase	unknown	unknown	gnl\|CDD\|234703
NC_009253.1\|WP_011877381.1\|1091669_1092833_+\|chorismate-synthase	unknown	unknown	gnl\|CDD\|235438
NC_009253.1\|WP_011877368.1\|1075040_1076864_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	cas8c	cd09757_cas8c_CAS-I-C	gnl\|CDD\|378245
NC_009253.1\|WP_011877371.1\|1078391_1079423_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	cas1	cd09721_cas1_CAS-I-C	gnl\|CDD\|188360
NC_009253.1\|WP_011877366.1\|1072165_1074361_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|350688
NC_009253.1\|WP_041274407.1\|1085974_1086556_-\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_041274487.1\|1079443_1079734_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856

Protein	Function_ID	Function_description	E-value
NC_009253.1\|WP_011877378.1\|1089190_1090042_+\|CBS-domain-containing-protein	gnl\|CDD\|341374	cd04599, CBS_pair_GGDEF_assoc, Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members), Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase), retinitis pigmentosa (IMP dehydrogenase-1), and homocystinuria (cystathionine beta-synthase).	6.76391e-65
NC_009253.1\|WP_011877373.1\|1084431_1085811_-\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	2.73774e-22
NC_009253.1\|WP_011877365.1\|1070286_1071813_+\|cysteine-desulfurase	gnl\|CDD\|224029	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism].	1.42721e-165
NC_009253.1\|WP_011877367.1\|1074378_1075044_+\|type-I-C-CRISPR-associated-protein-Cas5	gnl\|CDD\|187534	cd09752, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex; in subtype I-C this protein might be the endoribonuclease that generates crRNAs; also known as DevS family.	2.99935e-121
NC_009253.1\|WP_011876914.1\|1083631_1084432_-\|AAA-family-ATPase	gnl\|CDD\|225806	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion].	5.54405e-33
NC_009253.1\|WP_011877364.1\|1067916_1070064_+\|hedgehog/intein-hint-domain-containing-protein	gnl\|CDD\|372590	pfam13403, Hint_2, Hint domain. This domain is found in inteins.	1.59685e-09
NC_009253.1\|WP_011877381.1\|1091669_1092833_+\|chorismate-synthase	gnl\|CDD\|235438	PRK05382, PRK05382, chorismate synthase; Validated.	0
NC_009253.1\|WP_011877379.1\|1090233_1090737_+\|YqeG-family-HAD-IIIA-type-phosphatase	gnl\|CDD\|225090	COG2179, COG2179, Predicted hydrolase of the HAD superfamily [General function prediction only].	8.10274e-55
NC_009253.1\|WP_011877382.1\|1092834_1093368_+\|shikimate-kinase	gnl\|CDD\|184412	PRK13947, PRK13947, shikimate kinase; Provisional.	6.68699e-71
NC_009253.1\|WP_011877369.1\|1076847_1077714_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	gnl\|CDD\|377458	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7. CRISPR-associated protein Cas7 is one of the components of the type I-B cascade-like antiviral defense complex. In Haloferax volcanii, Cas5, Cas6 and Cas7 form a small complex that aids the stability of CRISPR-derived RNA.	1.6982e-156
NC_009253.1\|WP_011877370.1\|1077715_1078375_+\|CRISPR-associated-protein-Cas4	gnl\|CDD\|273040	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.	5.13313e-35
NC_009253.1\|WP_156779604.1\|1059964_1067887_+\|hypothetical-protein	gnl\|CDD\|375703	pfam18276, TcA_TcB_BD, Tc toxin complex TcA C-terminal TcB-binding domain. This domain is found in the C-terminal region of the Tc toxin TcA, present in Photorhabdus luminescens. Tc Toxin complexes bind to the cell surface, are endocytosed and perforate the host endosomal membrane by forming channels that translocate toxic enzymes into the host. This domain is responsible for binding to toxin TcB. Binding of TcA to TcB/TcC opens the beta-propeller gate.	1.18347e-125
NC_009253.1\|WP_011877380.1\|1090783_1091659_+\|shikimate-dehydrogenase	gnl\|CDD\|234703	PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed.	3.49554e-123
NC_009253.1\|WP_011877368.1\|1075040_1076864_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	gnl\|CDD\|378245	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1). CRISPR loci appear to be mobile elements with a wide host range. This entry represents proteins that tend to be found near CRISPR repeats. The species range, so far, is exclusively bacterial and mesophilic, although CRISPR loci are particularly common among the archaea and thermophilic bacteria. Clusters of short DNA repeats with nonhomologous 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.	0
NC_009253.1\|WP_011877371.1\|1078391_1079423_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|188360	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the DVULG subtype of CRISPR/Cas system.	3.22594e-178
NC_009253.1\|WP_011877366.1\|1072165_1074361_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|350688	cd17930, DEXHc_cas3, DEXH/Q-box helicase domain of Cas3. CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.	1.60729e-54
NC_009253.1\|WP_011877383.1\|1093348_1094428_+\|3-dehydroquinate-synthase	gnl\|CDD\|234565	PRK00002, aroB, 3-dehydroquinate synthase; Reviewed.	0
NC_009253.1\|WP_041274487.1\|1079443_1079734_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	9.40703e-34

>NC_009253.1|WP_041274487.1|1079443_1079734_+|CRISPR-associated-endonuclease-Cas2
MMMLITYDVNTTTDAGKKRLRRVAKQCINYGQRVQNSVFECLLDPAQFAELKNTLEEIIDKEKDSLRYYYLGSNWKKRIKHVGAKEIFDPEGTMII
>NC_009253.1|WP_011877371.1|1078391_1079423_+|type-I-C-CRISPR-associated-endonuclease-Cas1
MRKMLNVLYITNPEAYLAKDGENLVVRVQDEEIFRTPIHYLEGIVTFGYMGASPALLGMCVEKGVTVSFLTAHGKHQATVHGTPKGNVLLRRKQYRLADSESESAKLASMFIIGKIANCRTVLRRFMSDYGDKVQIEEVDRVSKIMARNVLRLGKELLLDEVRGIEGESAQMYFSVFDQLIICHKDHFFMKGRNRRPPLDNMNALLSFLYSLLLHETRSALETVGLDPYVGFLHRDRPGRTGLALDLMEEFRPYLVDRLALSLINRRQVTGDGFLKKESGGVIMKENVRKIVIEAWQKRKREEITHPFLEKKIYVGLLPYAQALLLARHLRGDLDRYPPFVWK
>NC_009253.1|WP_011877370.1|1077715_1078375_+|CRISPR-associated-protein-Cas4
MEKLYEEDDLLALSGIQHFAFCERQWGLIHVESQWVENVKTVEGKNMHKRVDDPYFTETRGDVKIVRSVPLMSKTLGLYGVADVIEIQQHDDNFGIVNYSIVEYKRGKPKADDRDQVQLCAQALCLEEMLAITINYGYLFYGETKHRYRVEFNNCLRTRVQELAQRMHLLFEKGQTPPAVYNKKCKNCSLFDICVPELSKVNKRTQKYLSRVFDDMRIE
>NC_009253.1|WP_011877369.1|1076847_1077714_+|type-I-C-CRISPR-associated-protein-Cas7/Csd2
MFEPIKNRYEFVLFFDVENGNPNGDPDAGNMPRIDAETGLGLVTDVCLKRKIRNYVDIVKNGIEGFDIYVREGSILNNQHMKAYSALDIKPESKKLPKNEEDARRVKAFMCKHFYDIRTFGAVMTTEVNCGQVRGPVQINFARSIDPIVQQEVTITRMAVTSVKDAEKKDREMGRKHIVPYALYRAEGYVSAHLAEKSGFTKEDLELLWQSLTNMFDHDRSAARGKMATRKLIIFEHETALGNASAHSLFDMVEVSRKDLIRPPRAYSDYKVTVNMAALPAGIKLMEK
>NC_009253.1|WP_011877368.1|1075040_1076864_+|type-I-C-CRISPR-associated-protein-Cas8c/Csd1
MIINALYQYYGTLLNDQDSGVSRPGFSKAKVGYCLVLSREGQLLDIIDLRVERNKKLVSREMDVPEQVKRASGVAANFLCDNCTYILGLGQKNKQEKRDRIKKCFEAFVQRQEEILQGVEDEGAVALLKFLRGWDIASAVEHPAIIRQLDGLVEGSNLVFKLEGNEGYIHERKTIREAWNRHRNAQVSDIRMQCLVTGEKTGIARLHPSIKGVTGAQPSGASLISFNLNSFTSYRKTQSFNAPVGEEAVFGYTTALNYLLGSEKHRIRIGDTTTVFWAEKSTNGLEEDLLGLLFFPVAEENGKSDKKDDHSLRQATRDPQTVKLLHDIFRRVKEGKAVSQELTGINLNTNFYILGLAPNASRLAVRFWHVDTYGKLIAKIAQHYRDMAMVKNFEKNPYFIPLGMILKETAPLKDSKRIAPLLGGVLMRAILSGTPYPMSLYSSMISRIRADQEVNYVRAAVIKACLVRHERFYNKGNEVELTVALNEQNSNKGYLLGRLFSLLEKAQEDANPGINSSIRDRYFGSASATPGSVFPILLRLAQHHITKAEYGRHTDKRIEDVISSIDGFPAYLTLEEQGQFVLGYYQQRQALYTKTEKKGELNNVRTN
>NC_009253.1|WP_011877367.1|1074378_1075044_+|type-I-C-CRISPR-associated-protein-Cas5
MGYGIRLLVWGEFACFTRPEMKVERVSYDVMTPSAARGILESIHWKPSIVWKIDKIHVLNEIRFDNVRRNEVGSKIPTGNVRKAMKGEPTLLCQYASEDRQQRATLLLRNVAYVIVAHFEMTSKAGPQDSPEKHYAIFSRRARQGQCFQQPYFGCREFPAKFRLIEEDEPTPHSLHKGDKDLGWMLLDIDHEDGMNPRFFRATMKDGLIEVPPMERGLTVL
>NC_009253.1|WP_011877366.1|1072165_1074361_+|CRISPR-associated-helicase/endonuclease-Cas3
MNYYAHSDKEKDKNQWHLLRDHLQGTGVTASTFAKSFGGETIAHVAGLLHDLGKYSPEFQKRLEGHSIKVDHSTAGAIEGGKRYGLIGKILAYIIAGHHSGLPDWGSVADETSLEARLKKKLYDYMSFSKEINLPVEKDITMPAIRPIVGAGFSVQFLTRLLYACLVDADFLDTERALNPEKAAARVKKYSLKKLSNNLEQYLNNLCTKASDTAINRKRYKILANCREKAECEPGLFTLTVPTGGGKTLSSLSFALRHAIRYEKERIFYVIPFTSIIEQNAMVFKRVIGEENVLEHHSNFAYPQEDQWEMENDLADKLAQQKLATENWDMPVIATTNVQFFESLFAAKSSRCRKIHNLANSVIIIDEAQMIPTGFLKPCLNAVVELVANYHATIVLCTATQPAINKFLPKEIVPVEIIDNPEELYKAFKRVQVHNIGTVSDVELVEKLVSQDQVLCIVNSKKHARILYEGIRGDGTFHLSTRMCPVHRTKVLEMVKERLKEGQVCRVISTQLIEAGVDIDFPVVYRSMAGIDSIAQSAGRCNREGLREMGQVYVFWPEKHGMPRGWLNRTASLGSMVFKRYEDPLGLEGVKAYFTSLYDVDAAELDKKCIMEDIREQERQLRFPFRTIAEKFKLMNDNTSTIVIPWDKYCQKTLAEAESNLFSGSYARKLQRYGVAVYEKEFRELLEFGALEVVGGRFYVLKEDMFDAYYSQETGLKPFTESMFLNDTLII
>NC_009253.1|WP_011877365.1|1070286_1071813_+|cysteine-desulfurase
MESAMPANSKLINQKIKFGKLLGLKGAVSSEVLYAAKGNAEYLHNLMISKNKPEFMHYLLKNPVQTNINPTEQEIVNFVEELERKLFHQEQKQSYERRYGIFFELDPKKDSRAEPCKSWAPIKTPDFREVYLDHNATTPVRPEVASVLLNYYSGKYGFGNPSSNTVQGSYAAALVSEARQRIANCLAASPREIIFTGSGSEANNLAIKGIAFKDLDKKGHLITSKVEHPSVLRVMEYLETIGFSVTYLATDKYGQVLPNSVKQAIRKDTLLVSLMAANNEIGTINPLREIGQICRERNILFMVDGIQAFGKIPLNPKEMGISLLSFSGHKIYAPKGIGGLYVEKGISLIPQVHGGGQESGIHSGTENVGSILALGKAAELAHGEMEKERVRFLELRSFFLDGLKEIEPCFILYGSLENRIPNNLSIGFPAVDSGALLRSLNRIGISVSAGSACSSKKFKNSYVLEAIGADTEKYATIRFGFGLQTKEEDVAYLLKYLKQILNLIKETK
>NC_009253.1|WP_011877364.1|1067916_1070064_+|hedgehog/intein-hint-domain-containing-protein
MGWENCVANIRTTLDRNAKEVNEVNWSAIDQDALDNDTFRNGSPFSLICPSRHCTDFADISPQAHRICRCEDMNGNPIPNCEPKDYLYPYPSQVCLNIDNPSDYSGKRSRACTRQGDSYYQLTCHCCCSCFAYGTKIGTPNGHKKIEKFAVGDLVLAAGIETSAGGIKLNWSPLKVSFSSGTGPDSHQPAMVYIRHGDTGSIIVTPDHLFLMPNGKLKRADRLVPGKDQLVSYEGRPVPVHEVSIGEYEGGVHHIATQKNFTGDLDGHLLLSEGVVSGDFNLQIHATELKEKYFIVDHDSYPQIGTKEYIEQNNELVQGSYLNFQVAGLNESNTAPQPLKYFVHGQKVSYIPETAAKYLSSLQEIDVNDNAEKRSFSEMNMGNAAVNYVLKLFRGFYSNIIFHHDIARLEPNAYAFNQYGKDIVVLSGGLSRIKNLQMEGLAVILSHMVTRLQKSDPLDYNGYTSVAMADYYSPSVLQTVLFDKLYADVLKEGVKQIEDNIFSNIDKKHAAFEEDPYTPTWETRLDSLDAGYAMDFPPEEIGGPVFQGLKLQGAEAFSAVLTQDSFIAGDIDSAVSRQVFEMLKKNKVLDEQGVLSSKFSIDTDLDFLFKEKPKNLKRYLTEGVRYMLMHEHAKIRLTFNLPMSAARVSAVSNYELEPETSIFHAEVDEKDASVLWLAAPLQRDKEYTLTVSNYFTSQDGSTLDPKYNSIKVKLS
>NC_009253.1|WP_156779604.1|1059964_1067887_+|hypothetical-protein
MNLNTLKLKGMESFQEQNPQFNILDFNFHNEEQLANLKWDGTDKKTLLRNLQAYQRLLRIYPDVNAAQTLQEQGFDSAFKITALSRNQFVKELGPLLGEQGDAKAEKIHSRAENKKNQVMHTWAAAQNITSPHFKAMRVNSINSGVNAFFERMPSYQDIFGSLDYCQCEHCKSIFGPAAYFVDLMRITEKYVNKPNEKTIPPGMKLSDRRPDLTKIKLICENTNGTMPYLRIVNERLEDLVGRTLKERDNLYQTLANQYYPFNLPFQLPLERIRQYLQRLKTELWQIYDAFASSDKNKAAEYLKLSTEEWQLLTSENTNEDKLKEYYGIADLSRLTDAATFCNQTGLTFKQLRDLLYQNLSEEEVEQGIAKQFFINQGLPNYLRIEAAGEKQVIKNLNNTALDRLHRFLRLVRKTGWTYAELDWSLHCVKKGIPALDDSALAGLAGIKELASQLNVSTADACALLFDLKSYGVGIDPANSAAPFDLVFNGAGVKTYRPKYPWNPMYTQDVMQWQVAADDDANRNLAVRMAAAVALSQDHVKLLAQKLFGTEQPVNMTVENLSLLYRHAKLAALLTLPVPQYLKFIALLIDDVCRFTAGSIMETVQTASLLRRSGMNVFDLDYIVNGMNSPFVDTSYREQDVEPWLKTLPALVKSAALPAGEQQSEQEKKIIEQLAIFFGARTEQIQALLSLTGHTALVPIFLDATKKEEAKGIIKDVARHLVLVRKLNLKVQEIESIRQHPASYGIKNPTSLSPYDIIKLIRFKELAASYDDPQDHLTAYMNAANEAEASQEMAALTGQEEGQITILWALFKDANRMDILYKIYRVWELIQQTGTNLSFLQSLNNLAGKGVTGSWDTYVSAADSLITAVKARYTNEVWNKLYEQLEGEEQENKRQALIGLAIHQLSQNEETQWIKNTRNLYEYLLIDVEMSGCAQISYIKEGLNAVQIYLSRCRKQLEPGVEDFSVPEIWWEWMMNYRVWEANRKIFLYPENYIEPAHRNSKTRLFKELENTLKQGDIDNKTVEEAYKKYLDGFAELAKLVYVDAYYCNVSDEKREDAPTLFLFARTQTQPYTYYYIVRESDGTWSEWHKINITINSEYITPVYVFNRLFVFWVELKKNEDNQEAGKKITQHKASIKYTFYNFSGDWIQPQTLVEDMVISVQGGPQLPGYNGLFSASLFDIDQLWWKKVYALKLEKGRYWMLGAGANKFEKVMLLYGPLLNTSDFGGWTPPDFSKSPVKDSFAFGLYQTAKNFKVVKDYGYEGCLPVCKPVVINDDLEKGFIANPDEFLFIRKDSADSITCFRPKIDSTSGCLNLLDSENIICDNFSEQQIMDTLGKVCLASGTTCLSTAMRNKKYEIFTVKNHPAAFVFKGEKESFLLCDPDKNLLSISRGIYNSDTLFKADSFVSSAVDIQKEGSETLFNQLVQYGYLSQQGIISTDTLLRDLVKDLNDIFYDQAQKDDKVAAVKNILMHRPLIKPNSFVSADVKIEQSGSTALFNQLMKYGYLDKNGRLDADIDFYTLSQDVASMLQGQPDQDKKVRFVVDTLYRSAFPTSVGFFVGKEPAYSVCDFKFKATRMTTAAVHKLSTALFTGSIDKLLSLESQQIPVESELPFQRFHFSEPKVEVPEVLDGTQVDFFGTYGLYYWELFFHAPLYIYKLLQTNQKFQDAEKWIKYIFNPTLPQNPVREDTFQTSRLGIRDSRAIYKILCDQGIITAEGMVSPSFTRKTPLNTYLKTILNQEQIESVKNILLNYKISNQVAHFWQFQPFRNHTLESLLDQLKNPGEIAAYNNTPFDPHAIARLRIGAYEKMVVMQYIDNLLEWGDSLFARYSWEFITAATLLYICAYNLLGERPENMGPAKTPTPVTFQDIFQKYQYDIPQFLIDLEHVTGQHPPDTAGTPFNEFDAYFCVPENTEFIGYWDRVEDRLYKIRHCLNIDGVKQALPLFQPPIDPAQLARFATAESDILSIISHGKTDVPHYRFNHMLEKAKGMAATLSQLGSSLLSVLEKKDTEALTLLRSTHEKNILNLTTLTKEKQLEEINETIESLRQSWSSAQNRLQHYQSLYDENLNALENTSLNLMQSSVGLQVVSSCIRGLSVAGYLTPNIYGFSNGGMDFGQAINAGAQVIDVTAGIMSQTAGVIATGAQYVRRREEWKIQCDIARYEVQQIEKQISANQARLAYMERELEIHQKNIQQADEYELFIKNKFTNQDLYQWMIGRIASVYFQTYRMALDTALAAQAAYQNELCRDDQFIAFDYWDSLHKGLLTGESLLLSLSQMEKAYLQNNVRQLEIEKTISLLHLDPQSFMAFKWGINGAEIGKLTFELSEKLFDFDFPGHYRRKIKSILVTIPAIMRPYQNINATLVQNSNKIVLKPDIKAIEHVMEPATYPDYPDGSLRENWLPNQQIAITRGVDDSGLFVLDFRDEQYLPFEGTGAVSRWTLHLPPESNRIDFNTISDIILQIKYTAQDGGENLANQVKALLYADNPPYPYSLAKCVDLKQSYLAEWQKFINSWPSGGLQQISFPINDEMILPNLKDVQISTATVLLQTPAGIEVSDRDSTSQFVYLKTGDKDRQPVPINNNIGSIVLSKTLPIKENWLLELDTARLPAVLLDKGVINPHVLLDMVVLIGYESNVFNKPKKN
>NC_009253.1|WP_011876914.1|1083631_1084432_-|AAA-family-ATPase
MFTQFFGLKFNPFSKEVPADKLFISQDLLELESRLKYLQSTRGIGLVAGEPGAGKSTALRKFVNELNPALYKHCYFSLATVTVLEFYQGLALELGEQPKHKKVAIFRQIQGAINSMYYERRITPVIILDEIHLASNKLLEDLRLIFNFKMDSQNPFILVLAGQPLIRSKLSLNINNPLRQRLVVKHIMQGLKPEEIRDYCTSRLKQAGLIEEIFTDSAIDAIYATTKGLPRLINNLVTNCLLYAYYKKLRQIDEEVVYQAQNELNI
>NC_009253.1|WP_011877373.1|1084431_1085811_-|IS481-family-transposase
MLTAKDRESIALKKFSLISPVLNGQVKNQKDYFETICVKPIDMPYYGFRMYSPKTLMCWLSDYRRGGLDSLKPGYRSDKGKSRKVSLEIADEIRKKRSQMPRITSALLYEELVKDKVILPEKLSRATFYRFLVANPELAAGKDPENPGEKELKRFSHQRINELWQTDIMFGPYISIGKSKKQAYLIAFIDDASRLITHAQFFFFQNFVALRVALKEAVLKRGIPKMIYTDNGKVYRSDQLNMLCAGLGCSLIHTEPFTPTSKGKIERFFHTVRQRFLSRLDPTKLKSLDQLNLYFWQWLEEDYQCKTHSALNMSPLDFFMAQVHNINFLANPQLLEEHFLLRVTRKVNHDATLSVESILYETEQSLANSRLEVRYDPDWLANSNQPILLYRDGMKVGEARQVNFFDNARAKRKGRGRQSQSSQELLESVETSEQKATPSISYAQIDDQLKQSSREVGDR
>NC_009253.1|WP_041274407.1|1085974_1086556_-|hypothetical-protein
MQLIFDSKTTPKQYYQCGYEYSFPKPYTCLHPDCKIPVPPRPHGYYIRNVITLGFNGRILIRRYYCKYCGHTFSYLPSFCLPYFQYSLVTIFLALLWHYLNLIPLLKVLTSRLQWQRQHLQFYRRRFKANLKFIKAVLRQMMPQVILPKEDDIKKEARKVLIIVKTGFGQIQAFSTRFFTQSNNTFMASRKLA
>NC_009253.1|WP_011877377.1|1088819_1089191_+|hypothetical-protein
MTSNFQFSSRPSEPIRKAELSIRLSEFEIPPMRDVLLVGKKAPIGPEAVRHMVDALSPDQYEIIRMDHPLFEAAVIKKSMLKLMPQEKLLPILLEEGERVSSDSSLLKAQINIEIQVTRGVEL
>NC_009253.1|WP_011877378.1|1089190_1090042_+|CBS-domain-containing-protein
MNCVEQIMIRELITISPFDSVGRVVNVMEKHKIGGLPVLENKRLVGIITSRDVRKAHPNRLVADAMSREVVTVMPQFSLWQAKELMENHCIERLVVLKEDYPVGLITKSGLITELGKYTDALTGLPRAEFLYDKALEFLRKGQEIAIIFLDLDDFGFIDKQFGHVVGDEILRQMAQVLKGTTQDKLDYLCRYAGDEFAIVTIRPWEDAQRLAQGIVEAISLEKWPQLINVKGSAGVVGSQIMCCHSINREADVISDLFNMASLASTKAKKEEGSIVIAGQVKL
>NC_009253.1|WP_011877379.1|1090233_1090737_+|YqeG-family-HAD-IIIA-type-phosphatase
MLAKLYPKLFVPSLFDINLSDLKRAGIKAILFDIDNTLIPWDRKDLDPKIEKWFRSLGQEGFKLCFVSNNDERRVIALTSLLQVPGVHKAAKPRRKGLRRALRILGTDIHETALVGDQVFTDVLAGNRLGLYTILVAPLAGKEFIGTRINRKLEKLVLRRIKKRYLK
>NC_009253.1|WP_011877380.1|1090783_1091659_+|shikimate-dehydrogenase
MGHCRINGKTQVCGLFGFPVEHSFSPAMHNAAFQQLDLNWTYVPFRVHPDNLKQAVTGIFSLNMAGVNVTVPHKQRVMPFLDELEPAARIIGAVNTIVNNNGKLVGYNTDGKGFVRALTEEARFNPLGKSAILIGAGGAARAVAVQLALSGLRTIYITNRNQEKAEELARDILESTDTSASMIPWGNNLLGKRMVEVDLVVQATPLGMSPEVDQVPEFPFQMLTPQHLVCDLIYNPEQTCFLRRAKSRGSKTMNGLAMLLYQGVLAFELWTGFTAPVDVMRNVLHKQVAKG
>NC_009253.1|WP_011877381.1|1091669_1092833_+|chorismate-synthase
MLRFLTAGESHGPALTAIVEGMVAGLPVTHEYINTQLARRQGGYGRGGRMKIEKDEVQFLSGIRGGYTTGSPITLQIANRDWQNWCHIMASGPDALLDERVVTRPRPGHADLPGAIKYDHSDIRNILERSSARETAARVAVGSMARCLLEELDIKLVGFVCSIGSIKASVAENLSIEDLVARTQSSQLFCPDEQAEEAMVKEIDQAKETGDSLGGVFEVRVYGVPVGLGSHVQWDRKLDSRLAGAMMGIQAIKGVEIGLGFGAAAVPGSQVHDEIYYAAQRGFYRGSNRAGGIEGGITNGEPLILRAAMKPIPTLYKPLRSVDIKNKEPYLASVERSDVCAVPAACVVGEAVVAWELAVALMEKFGGDSLGEIKARLNQWQQWVRQV
>NC_009253.1|WP_011877382.1|1092834_1093368_+|shikimate-kinase
MKNIVLVGFMGSGKSSIGHRLARKLGYQFVDTDYAIEEVTGLTVEQIFAKHGIKRFRGEEVLLVSKLADKEGVVIATGGGLVLNSQNVEKLQQNGIFICLQASPETICKRVKNKRTRPLLARGNLKEKVIKLLQERKDAYDMADLTISTDHLEPDDIVKIIYKFLLERGVIHGNHSG
>NC_009253.1|WP_011877383.1|1093348_1094428_+|3-dehydroquinate-synthase
MGTIQVDLGNRSYPIYIASAILDKIGTYLSEQPLGKKVLLVTDQQVAPLYAPRVIESLKNAGFKVAVAEIPAGEPSKTLEQASRLYDLAFDHALDRQSSVIALGGGVVGDLAGFVAATYMRGVPFIQIPTTLLAQVDSSVGGKVAVNHSRGKNMIGAFYQPQMVMIDVATLQTLPERELKAGLAEVIKYGVIWDGSFFTWLEKNYSRILNLDTTALEQVAETCCKIKASVVEQDEREQGCRAILNYGHTVGHAIESLSGYGTYLHGEAVAMGMISAARLALNEGILSQQDFERIYRLISAVGLPTELPRGLGPQDIIDSMYHDKKTVLGKLVFVLPRSLGQVDIFKDVKEADILAVLSQ

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Crispr_ID: NC_009253_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009253_3

1086730-1086828

TypeI

I-C

Consensus_repeat	Method
CGTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	CRISPRCasFinder

1 spacers

cas2,cas1,cas4,cas7,cas8c,cas5,cas3

The CRISPR arrays of NC_009253_3

>merge|NC_009253|3|1086730-1086828|CRISPRCasFinder
CGTCGCCCCTCACGCAGGGGCGTGGATTGAAACAGCTTTGGACACTCCTATACCAACACCTTCTGGCGTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

>NC_009253|3|3|1086730-1086828|CRISPRCasFinder
CGTCGCCCCTCACGCAGGGGCGTGGATTGAAAC	AGCTTTGGACACTCCTATACCAACACCTTCTGG
CGTCGCCCCTCACGCAGGGGCGTGGATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009253.1\|WP_011877378.1\|1089190_1090042_+\|CBS-domain-containing-protein	unknown	unknown	gnl\|CDD\|341374
NC_009253.1\|WP_011877384.1\|1094472_1096137_+\|type-II/IV-secretion-system-protein	unknown	unknown	gnl\|CDD\|225363
NC_009253.1\|WP_011877373.1\|1084431_1085811_-\|IS481-family-transposase	unknown	unknown	gnl\|CDD\|366234
NC_009253.1\|WP_011877385.1\|1096302_1097508_+\|type-II-secretion-system-F-family-protein	unknown	unknown	gnl\|CDD\|224376
NC_009253.1\|WP_011877383.1\|1093348_1094428_+\|3-dehydroquinate-synthase	unknown	unknown	gnl\|CDD\|234565
NC_009253.1\|WP_011877367.1\|1074378_1075044_+\|type-I-C-CRISPR-associated-protein-Cas5	cas5	cd09752_cas5_CAS-I-C	gnl\|CDD\|187534
NC_009253.1\|WP_011876914.1\|1083631_1084432_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|225806
NC_009253.1\|WP_011877386.1\|1097545_1098034_+\|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein	unknown	unknown	gnl\|CDD\|130771
NC_009253.1\|WP_011877369.1\|1076847_1077714_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	cas7	cd09689_cas7_CAS-I-C	gnl\|CDD\|377458
NC_009253.1\|WP_011877366.1\|1072165_1074361_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|350688
NC_009253.1\|WP_011877382.1\|1092834_1093368_+\|shikimate-kinase	unknown	unknown	gnl\|CDD\|184412
NC_009253.1\|WP_011877379.1\|1090233_1090737_+\|YqeG-family-HAD-IIIA-type-phosphatase	unknown	unknown	gnl\|CDD\|225090
NC_009253.1\|WP_011877370.1\|1077715_1078375_+\|CRISPR-associated-protein-Cas4	cas4	pfam01930_cas4_CAS-I	gnl\|CDD\|273040
NC_009253.1\|WP_011877380.1\|1090783_1091659_+\|shikimate-dehydrogenase	unknown	unknown	gnl\|CDD\|234703
NC_009253.1\|WP_011877381.1\|1091669_1092833_+\|chorismate-synthase	unknown	unknown	gnl\|CDD\|235438
NC_009253.1\|WP_011877368.1\|1075040_1076864_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	cas8c	cd09757_cas8c_CAS-I-C	gnl\|CDD\|378245
NC_009253.1\|WP_011877371.1\|1078391_1079423_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	cas1	cd09721_cas1_CAS-I-C	gnl\|CDD\|188360
NC_009253.1\|WP_011877377.1\|1088819_1089191_+\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_041274407.1\|1085974_1086556_-\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_041274487.1\|1079443_1079734_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856

Protein	Function_ID	Function_description	E-value
NC_009253.1\|WP_011877384.1\|1094472_1096137_+\|type-II/IV-secretion-system-protein	gnl\|CDD\|225363	COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion].	0
NC_009253.1\|WP_011877373.1\|1084431_1085811_-\|IS481-family-transposase	gnl\|CDD\|366234	pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.	2.73774e-22
NC_009253.1\|WP_011877367.1\|1074378_1075044_+\|type-I-C-CRISPR-associated-protein-Cas5	gnl\|CDD\|187534	cd09752, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex; in subtype I-C this protein might be the endoribonuclease that generates crRNAs; also known as DevS family.	2.99935e-121
NC_009253.1\|WP_011877385.1\|1096302_1097508_+\|type-II-secretion-system-F-family-protein	gnl\|CDD\|224376	COG1459, PulF, Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion].	6.32028e-118
NC_009253.1\|WP_011877383.1\|1093348_1094428_+\|3-dehydroquinate-synthase	gnl\|CDD\|234565	PRK00002, aroB, 3-dehydroquinate synthase; Reviewed.	0
NC_009253.1\|WP_011877378.1\|1089190_1090042_+\|CBS-domain-containing-protein	gnl\|CDD\|341374	cd04599, CBS_pair_GGDEF_assoc, Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members), Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase), retinitis pigmentosa (IMP dehydrogenase-1), and homocystinuria (cystathionine beta-synthase).	6.76391e-65
NC_009253.1\|WP_011876914.1\|1083631_1084432_-\|AAA-family-ATPase	gnl\|CDD\|225806	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion].	5.54405e-33
NC_009253.1\|WP_011877386.1\|1097545_1098034_+\|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein	gnl\|CDD\|130771	TIGR01710, Type_II_secretion_system_protein_G, type II secretion system protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis].	2.47431e-23
NC_009253.1\|WP_011877369.1\|1076847_1077714_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	gnl\|CDD\|377458	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7. CRISPR-associated protein Cas7 is one of the components of the type I-B cascade-like antiviral defense complex. In Haloferax volcanii, Cas5, Cas6 and Cas7 form a small complex that aids the stability of CRISPR-derived RNA.	1.6982e-156
NC_009253.1\|WP_011877381.1\|1091669_1092833_+\|chorismate-synthase	gnl\|CDD\|235438	PRK05382, PRK05382, chorismate synthase; Validated.	0
NC_009253.1\|WP_011877382.1\|1092834_1093368_+\|shikimate-kinase	gnl\|CDD\|184412	PRK13947, PRK13947, shikimate kinase; Provisional.	6.68699e-71
NC_009253.1\|WP_011877379.1\|1090233_1090737_+\|YqeG-family-HAD-IIIA-type-phosphatase	gnl\|CDD\|225090	COG2179, COG2179, Predicted hydrolase of the HAD superfamily [General function prediction only].	8.10274e-55
NC_009253.1\|WP_011877370.1\|1077715_1078375_+\|CRISPR-associated-protein-Cas4	gnl\|CDD\|273040	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.	5.13313e-35
NC_009253.1\|WP_011877380.1\|1090783_1091659_+\|shikimate-dehydrogenase	gnl\|CDD\|234703	PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed.	3.49554e-123
NC_009253.1\|WP_011877368.1\|1075040_1076864_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	gnl\|CDD\|378245	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1). CRISPR loci appear to be mobile elements with a wide host range. This entry represents proteins that tend to be found near CRISPR repeats. The species range, so far, is exclusively bacterial and mesophilic, although CRISPR loci are particularly common among the archaea and thermophilic bacteria. Clusters of short DNA repeats with nonhomologous 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.	0
NC_009253.1\|WP_011877371.1\|1078391_1079423_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|188360	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the DVULG subtype of CRISPR/Cas system.	3.22594e-178
NC_009253.1\|WP_011877366.1\|1072165_1074361_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|350688	cd17930, DEXHc_cas3, DEXH/Q-box helicase domain of Cas3. CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.	1.60729e-54
NC_009253.1\|WP_041274487.1\|1079443_1079734_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	9.40703e-34

>NC_009253.1|WP_041274407.1|1085974_1086556_-|hypothetical-protein
MQLIFDSKTTPKQYYQCGYEYSFPKPYTCLHPDCKIPVPPRPHGYYIRNVITLGFNGRILIRRYYCKYCGHTFSYLPSFCLPYFQYSLVTIFLALLWHYLNLIPLLKVLTSRLQWQRQHLQFYRRRFKANLKFIKAVLRQMMPQVILPKEDDIKKEARKVLIIVKTGFGQIQAFSTRFFTQSNNTFMASRKLA
>NC_009253.1|WP_011877373.1|1084431_1085811_-|IS481-family-transposase
MLTAKDRESIALKKFSLISPVLNGQVKNQKDYFETICVKPIDMPYYGFRMYSPKTLMCWLSDYRRGGLDSLKPGYRSDKGKSRKVSLEIADEIRKKRSQMPRITSALLYEELVKDKVILPEKLSRATFYRFLVANPELAAGKDPENPGEKELKRFSHQRINELWQTDIMFGPYISIGKSKKQAYLIAFIDDASRLITHAQFFFFQNFVALRVALKEAVLKRGIPKMIYTDNGKVYRSDQLNMLCAGLGCSLIHTEPFTPTSKGKIERFFHTVRQRFLSRLDPTKLKSLDQLNLYFWQWLEEDYQCKTHSALNMSPLDFFMAQVHNINFLANPQLLEEHFLLRVTRKVNHDATLSVESILYETEQSLANSRLEVRYDPDWLANSNQPILLYRDGMKVGEARQVNFFDNARAKRKGRGRQSQSSQELLESVETSEQKATPSISYAQIDDQLKQSSREVGDR
>NC_009253.1|WP_011876914.1|1083631_1084432_-|AAA-family-ATPase
MFTQFFGLKFNPFSKEVPADKLFISQDLLELESRLKYLQSTRGIGLVAGEPGAGKSTALRKFVNELNPALYKHCYFSLATVTVLEFYQGLALELGEQPKHKKVAIFRQIQGAINSMYYERRITPVIILDEIHLASNKLLEDLRLIFNFKMDSQNPFILVLAGQPLIRSKLSLNINNPLRQRLVVKHIMQGLKPEEIRDYCTSRLKQAGLIEEIFTDSAIDAIYATTKGLPRLINNLVTNCLLYAYYKKLRQIDEEVVYQAQNELNI
>NC_009253.1|WP_041274487.1|1079443_1079734_+|CRISPR-associated-endonuclease-Cas2
MMMLITYDVNTTTDAGKKRLRRVAKQCINYGQRVQNSVFECLLDPAQFAELKNTLEEIIDKEKDSLRYYYLGSNWKKRIKHVGAKEIFDPEGTMII
>NC_009253.1|WP_011877371.1|1078391_1079423_+|type-I-C-CRISPR-associated-endonuclease-Cas1
MRKMLNVLYITNPEAYLAKDGENLVVRVQDEEIFRTPIHYLEGIVTFGYMGASPALLGMCVEKGVTVSFLTAHGKHQATVHGTPKGNVLLRRKQYRLADSESESAKLASMFIIGKIANCRTVLRRFMSDYGDKVQIEEVDRVSKIMARNVLRLGKELLLDEVRGIEGESAQMYFSVFDQLIICHKDHFFMKGRNRRPPLDNMNALLSFLYSLLLHETRSALETVGLDPYVGFLHRDRPGRTGLALDLMEEFRPYLVDRLALSLINRRQVTGDGFLKKESGGVIMKENVRKIVIEAWQKRKREEITHPFLEKKIYVGLLPYAQALLLARHLRGDLDRYPPFVWK
>NC_009253.1|WP_011877370.1|1077715_1078375_+|CRISPR-associated-protein-Cas4
MEKLYEEDDLLALSGIQHFAFCERQWGLIHVESQWVENVKTVEGKNMHKRVDDPYFTETRGDVKIVRSVPLMSKTLGLYGVADVIEIQQHDDNFGIVNYSIVEYKRGKPKADDRDQVQLCAQALCLEEMLAITINYGYLFYGETKHRYRVEFNNCLRTRVQELAQRMHLLFEKGQTPPAVYNKKCKNCSLFDICVPELSKVNKRTQKYLSRVFDDMRIE
>NC_009253.1|WP_011877369.1|1076847_1077714_+|type-I-C-CRISPR-associated-protein-Cas7/Csd2
MFEPIKNRYEFVLFFDVENGNPNGDPDAGNMPRIDAETGLGLVTDVCLKRKIRNYVDIVKNGIEGFDIYVREGSILNNQHMKAYSALDIKPESKKLPKNEEDARRVKAFMCKHFYDIRTFGAVMTTEVNCGQVRGPVQINFARSIDPIVQQEVTITRMAVTSVKDAEKKDREMGRKHIVPYALYRAEGYVSAHLAEKSGFTKEDLELLWQSLTNMFDHDRSAARGKMATRKLIIFEHETALGNASAHSLFDMVEVSRKDLIRPPRAYSDYKVTVNMAALPAGIKLMEK
>NC_009253.1|WP_011877368.1|1075040_1076864_+|type-I-C-CRISPR-associated-protein-Cas8c/Csd1
MIINALYQYYGTLLNDQDSGVSRPGFSKAKVGYCLVLSREGQLLDIIDLRVERNKKLVSREMDVPEQVKRASGVAANFLCDNCTYILGLGQKNKQEKRDRIKKCFEAFVQRQEEILQGVEDEGAVALLKFLRGWDIASAVEHPAIIRQLDGLVEGSNLVFKLEGNEGYIHERKTIREAWNRHRNAQVSDIRMQCLVTGEKTGIARLHPSIKGVTGAQPSGASLISFNLNSFTSYRKTQSFNAPVGEEAVFGYTTALNYLLGSEKHRIRIGDTTTVFWAEKSTNGLEEDLLGLLFFPVAEENGKSDKKDDHSLRQATRDPQTVKLLHDIFRRVKEGKAVSQELTGINLNTNFYILGLAPNASRLAVRFWHVDTYGKLIAKIAQHYRDMAMVKNFEKNPYFIPLGMILKETAPLKDSKRIAPLLGGVLMRAILSGTPYPMSLYSSMISRIRADQEVNYVRAAVIKACLVRHERFYNKGNEVELTVALNEQNSNKGYLLGRLFSLLEKAQEDANPGINSSIRDRYFGSASATPGSVFPILLRLAQHHITKAEYGRHTDKRIEDVISSIDGFPAYLTLEEQGQFVLGYYQQRQALYTKTEKKGELNNVRTN
>NC_009253.1|WP_011877367.1|1074378_1075044_+|type-I-C-CRISPR-associated-protein-Cas5
MGYGIRLLVWGEFACFTRPEMKVERVSYDVMTPSAARGILESIHWKPSIVWKIDKIHVLNEIRFDNVRRNEVGSKIPTGNVRKAMKGEPTLLCQYASEDRQQRATLLLRNVAYVIVAHFEMTSKAGPQDSPEKHYAIFSRRARQGQCFQQPYFGCREFPAKFRLIEEDEPTPHSLHKGDKDLGWMLLDIDHEDGMNPRFFRATMKDGLIEVPPMERGLTVL
>NC_009253.1|WP_011877366.1|1072165_1074361_+|CRISPR-associated-helicase/endonuclease-Cas3
MNYYAHSDKEKDKNQWHLLRDHLQGTGVTASTFAKSFGGETIAHVAGLLHDLGKYSPEFQKRLEGHSIKVDHSTAGAIEGGKRYGLIGKILAYIIAGHHSGLPDWGSVADETSLEARLKKKLYDYMSFSKEINLPVEKDITMPAIRPIVGAGFSVQFLTRLLYACLVDADFLDTERALNPEKAAARVKKYSLKKLSNNLEQYLNNLCTKASDTAINRKRYKILANCREKAECEPGLFTLTVPTGGGKTLSSLSFALRHAIRYEKERIFYVIPFTSIIEQNAMVFKRVIGEENVLEHHSNFAYPQEDQWEMENDLADKLAQQKLATENWDMPVIATTNVQFFESLFAAKSSRCRKIHNLANSVIIIDEAQMIPTGFLKPCLNAVVELVANYHATIVLCTATQPAINKFLPKEIVPVEIIDNPEELYKAFKRVQVHNIGTVSDVELVEKLVSQDQVLCIVNSKKHARILYEGIRGDGTFHLSTRMCPVHRTKVLEMVKERLKEGQVCRVISTQLIEAGVDIDFPVVYRSMAGIDSIAQSAGRCNREGLREMGQVYVFWPEKHGMPRGWLNRTASLGSMVFKRYEDPLGLEGVKAYFTSLYDVDAAELDKKCIMEDIREQERQLRFPFRTIAEKFKLMNDNTSTIVIPWDKYCQKTLAEAESNLFSGSYARKLQRYGVAVYEKEFRELLEFGALEVVGGRFYVLKEDMFDAYYSQETGLKPFTESMFLNDTLII
>NC_009253.1|WP_011877377.1|1088819_1089191_+|hypothetical-protein
MTSNFQFSSRPSEPIRKAELSIRLSEFEIPPMRDVLLVGKKAPIGPEAVRHMVDALSPDQYEIIRMDHPLFEAAVIKKSMLKLMPQEKLLPILLEEGERVSSDSSLLKAQINIEIQVTRGVEL
>NC_009253.1|WP_011877378.1|1089190_1090042_+|CBS-domain-containing-protein
MNCVEQIMIRELITISPFDSVGRVVNVMEKHKIGGLPVLENKRLVGIITSRDVRKAHPNRLVADAMSREVVTVMPQFSLWQAKELMENHCIERLVVLKEDYPVGLITKSGLITELGKYTDALTGLPRAEFLYDKALEFLRKGQEIAIIFLDLDDFGFIDKQFGHVVGDEILRQMAQVLKGTTQDKLDYLCRYAGDEFAIVTIRPWEDAQRLAQGIVEAISLEKWPQLINVKGSAGVVGSQIMCCHSINREADVISDLFNMASLASTKAKKEEGSIVIAGQVKL
>NC_009253.1|WP_011877379.1|1090233_1090737_+|YqeG-family-HAD-IIIA-type-phosphatase
MLAKLYPKLFVPSLFDINLSDLKRAGIKAILFDIDNTLIPWDRKDLDPKIEKWFRSLGQEGFKLCFVSNNDERRVIALTSLLQVPGVHKAAKPRRKGLRRALRILGTDIHETALVGDQVFTDVLAGNRLGLYTILVAPLAGKEFIGTRINRKLEKLVLRRIKKRYLK
>NC_009253.1|WP_011877380.1|1090783_1091659_+|shikimate-dehydrogenase
MGHCRINGKTQVCGLFGFPVEHSFSPAMHNAAFQQLDLNWTYVPFRVHPDNLKQAVTGIFSLNMAGVNVTVPHKQRVMPFLDELEPAARIIGAVNTIVNNNGKLVGYNTDGKGFVRALTEEARFNPLGKSAILIGAGGAARAVAVQLALSGLRTIYITNRNQEKAEELARDILESTDTSASMIPWGNNLLGKRMVEVDLVVQATPLGMSPEVDQVPEFPFQMLTPQHLVCDLIYNPEQTCFLRRAKSRGSKTMNGLAMLLYQGVLAFELWTGFTAPVDVMRNVLHKQVAKG
>NC_009253.1|WP_011877381.1|1091669_1092833_+|chorismate-synthase
MLRFLTAGESHGPALTAIVEGMVAGLPVTHEYINTQLARRQGGYGRGGRMKIEKDEVQFLSGIRGGYTTGSPITLQIANRDWQNWCHIMASGPDALLDERVVTRPRPGHADLPGAIKYDHSDIRNILERSSARETAARVAVGSMARCLLEELDIKLVGFVCSIGSIKASVAENLSIEDLVARTQSSQLFCPDEQAEEAMVKEIDQAKETGDSLGGVFEVRVYGVPVGLGSHVQWDRKLDSRLAGAMMGIQAIKGVEIGLGFGAAAVPGSQVHDEIYYAAQRGFYRGSNRAGGIEGGITNGEPLILRAAMKPIPTLYKPLRSVDIKNKEPYLASVERSDVCAVPAACVVGEAVVAWELAVALMEKFGGDSLGEIKARLNQWQQWVRQV
>NC_009253.1|WP_011877382.1|1092834_1093368_+|shikimate-kinase
MKNIVLVGFMGSGKSSIGHRLARKLGYQFVDTDYAIEEVTGLTVEQIFAKHGIKRFRGEEVLLVSKLADKEGVVIATGGGLVLNSQNVEKLQQNGIFICLQASPETICKRVKNKRTRPLLARGNLKEKVIKLLQERKDAYDMADLTISTDHLEPDDIVKIIYKFLLERGVIHGNHSG
>NC_009253.1|WP_011877383.1|1093348_1094428_+|3-dehydroquinate-synthase
MGTIQVDLGNRSYPIYIASAILDKIGTYLSEQPLGKKVLLVTDQQVAPLYAPRVIESLKNAGFKVAVAEIPAGEPSKTLEQASRLYDLAFDHALDRQSSVIALGGGVVGDLAGFVAATYMRGVPFIQIPTTLLAQVDSSVGGKVAVNHSRGKNMIGAFYQPQMVMIDVATLQTLPERELKAGLAEVIKYGVIWDGSFFTWLEKNYSRILNLDTTALEQVAETCCKIKASVVEQDEREQGCRAILNYGHTVGHAIESLSGYGTYLHGEAVAMGMISAARLALNEGILSQQDFERIYRLISAVGLPTELPRGLGPQDIIDSMYHDKKTVLGKLVFVLPRSLGQVDIFKDVKEADILAVLSQ
>NC_009253.1|WP_011877384.1|1094472_1096137_+|type-II/IV-secretion-system-protein
MLTVAPKSLIGNILLEKGAISQQQLREALNNHRQTDQPLGQVLVDLGYVTKKQVSQYLDYQEQMEEEVIHIQEIDKALLKLFSEQILRRYKIFPLFKKGNKLTVAMAEPANVIAIDDLKVISNLDIVPVEVQEQIIELAIDLYYDITKREVNDKEQRLVITDEEEVPIIQLVYQIIDRAIDQGASDIHIEPQEKRVRIRYRIDGMLILGMELAPTLDKAIISRIKIMSQLNIAEKRVPQDGRIQYGKQSRNFDLRVSTMPTVYGEKAVIRILNPESIKKYQLAQLGFSAYNLKSFQKCLRATSGMVLITGPTGCGKTTTLYAILNELNLEDRNFSTIEDPVEYRLEGINQTQVNTKTGMTFAVGLRALLRQDPDIIMVGEIRDRETAEIAVTAAGTGHLVFSTLHTNDALGALDRLIHMGLEIFQVASSVLVVVAQRLVRKLCPYCKEGYLVETKSPEYAFLQSTPWQDHIFYKAKGCVHCNFIGYRGRMAIQEVLQVNGNIRKLLVERAPSGELKKAALQGGMTTLKTDGIEKALQGLTSIPEVMRVAYSDEE
>NC_009253.1|WP_011877385.1|1096302_1097508_+|type-II-secretion-system-F-family-protein
MAVFFKYQAKKYSGEEVRGRIKADHKNTALQMLRKQRLFVTKIWQVPEPGYLSVKIKSGVQVKELALFCRQFATLSSSGVPIVQSLYLLKEQTGNKALKGALEAIAEDLQGGKSLGQALSSHHKIFSAFFINMVEAGEMSGSLDHVLDRLADYFERAYELREKFKTAITYPAFIMSMAICTIGCVFIFVLPTFAQIIIELQAPISLPTAIVIQISEWLKGNWVSLLFFPLLSGLLYKKYTQTPQGKRRLDYLTLQTPVYGKIVKQMNIVRICRTLAILLESGITLMTGLELIKNQTRNTLFKEALEQAIESLKKGIGLSVPLQESSYFPPMVSHMIRVGEETGGLDTVLRKITDFYEKEVHRTITRLSTLLEPVLICLIGGIISFIMISILMPIFSIMDAM
>NC_009253.1|WP_011877386.1|1097545_1098034_+|prepilin-type-N-terminal-cleavage/methylation-domain-containing-protein
MKWVKNNRGFTMIEILVVITMIGILSTIVVPKITSQMDKPKKSRAMIEIKTIKDALDIYFAENSSYPTTQKEIAEVMRDNGVLGEKFGKYSALDPWKNPYYIKITTNEYTIWSEGPKTGTELDDIVTTNEDTEVYVDKNNNLDPSTATTDSTKNGTISTEGS

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Crispr_ID: NC_009253_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009253_4

1764821-1766001

TypeIII

Consensus_repeat	Method
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	PILER-CR
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CRISPRCasFinder
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CRT

15 spacers

WYL,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csx1,cas6

The CRISPR arrays of NC_009253_4

>merge|NC_009253|4|1764821-1766001|PILER-CR,CRISPRCasFinder,CRT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACAACAAGTCTAATACCAGTAGCGAGTATCCATTCTTCCTCGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACAAAATATACATAAGTAAATTGGCTGTGGTTAGTTCTTCGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTGAAATATGGATTCAATCTTTAGAAGGTGGCACTATATCCGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACAGCTGCACTGTTATAAGATTCACTGATTGTAGCTGATTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACGTATGCTTCTTTATATTCTTAATAACTGTAAATGGTCTAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACGCATTATTATATTTGCTTGTTTCTTCCGTTAACCACTTTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACACAAATAAAAAAGGTCAGATGACTTCTGTTACATTAACGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTGAAAGTGTCAGTATGCATATTCAAGCAATTCAAAAAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACATTTTAAAATTATTCATTTTTACCTCCTATTCTGTGACTGGTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACGGTATCCACCTTCGGCAGGTGAAACAAAAAAGTGGGCAAGGCCCAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACGTATAGCAGAAGTTGGAGTATTACAGCCGATACTGGTAAAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTTGAGGAATGATGGCAGTAACACTGCTTTCTATGCCTGCGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTCCTTACCCCTTTAGCAGATATACAGTCATCTTCTTCAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACATTACACTATTCTACCTATGTAATTAATTTCCTTTACGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTATATTCAACACACCATCCTTTTACCTATCTCGGCAATATGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC

>NC_009253|4|3|1764821-1766001|PILER-CR
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AACAAGTCTAATACCAGTAGCGAGTATCCATTCTTCCTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAATATACATAAGTAAATTGGCTGTGGTTAGTTCTTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAATATGGATTCAATCTTTAGAAGGTGGCACTATATCC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AGCTGCACTGTTATAAGATTCACTGATTGTAGCTGATT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATGCTTCTTTATATTCTTAATAACTGTAAATGGTCTA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GCATTATTATATTTGCTTGTTTCTTCCGTTAACCACTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ACAAATAAAAAAGGTCAGATGACTTCTGTTACATTAAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAAGTGTCAGTATGCATATTCAAGCAATTCAAAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTTTAAAATTATTCATTTTTACCTCCTATTCTGTGACTGGT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GGTATCCACCTTCGGCAGGTGAAACAAAAAAGTGGGCAAGGCCCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATAGCAGAAGTTGGAGTATTACAGCCGATACTGGTAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TTGAGGAATGATGGCAGTAACACTGCTTTCTATGCCTGC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TCCTTACCCCTTTAGCAGATATACAGTCATCTTCTTCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTACACTATTCTACCTATGTAATTAATTTCCTTTAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATATTCAACACACCATCCTTTTACCTATCTCGGCAATAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC

>NC_009253|4|4|1764821-1766001|CRISPRCasFinder
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AACAAGTCTAATACCAGTAGCGAGTATCCATTCTTCCTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAATATACATAAGTAAATTGGCTGTGGTTAGTTCTTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAATATGGATTCAATCTTTAGAAGGTGGCACTATATCC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AGCTGCACTGTTATAAGATTCACTGATTGTAGCTGATT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATGCTTCTTTATATTCTTAATAACTGTAAATGGTCTA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GCATTATTATATTTGCTTGTTTCTTCCGTTAACCACTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ACAAATAAAAAAGGTCAGATGACTTCTGTTACATTAAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAAGTGTCAGTATGCATATTCAAGCAATTCAAAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTTTAAAATTATTCATTTTTACCTCCTATTCTGTGACTGGT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GGTATCCACCTTCGGCAGGTGAAACAAAAAAGTGGGCAAGGCCCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATAGCAGAAGTTGGAGTATTACAGCCGATACTGGTAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TTGAGGAATGATGGCAGTAACACTGCTTTCTATGCCTGC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TCCTTACCCCTTTAGCAGATATACAGTCATCTTCTTCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTACACTATTCTACCTATGTAATTAATTTCCTTTAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATATTCAACACACCATCCTTTTACCTATCTCGGCAATAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC

>NC_009253|4|3|1764821-1766001|CRT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AACAAGTCTAATACCAGTAGCGAGTATCCATTCTTCCTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAATATACATAAGTAAATTGGCTGTGGTTAGTTCTTC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAATATGGATTCAATCTTTAGAAGGTGGCACTATATCC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AGCTGCACTGTTATAAGATTCACTGATTGTAGCTGATT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATGCTTCTTTATATTCTTAATAACTGTAAATGGTCTA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GCATTATTATATTTGCTTGTTTCTTCCGTTAACCACTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ACAAATAAAAAAGGTCAGATGACTTCTGTTACATTAAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TGAAAGTGTCAGTATGCATATTCAAGCAATTCAAAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTTTAAAATTATTCATTTTTACCTCCTATTCTGTGACTGGT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GGTATCCACCTTCGGCAGGTGAAACAAAAAAGTGGGCAAGGCCCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	GTATAGCAGAAGTTGGAGTATTACAGCCGATACTGGTAAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TTGAGGAATGATGGCAGTAACACTGCTTTCTATGCCTGC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TCCTTACCCCTTTAGCAGATATACAGTCATCTTCTTCA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	ATTACACTATTCTACCTATGTAATTAATTTCCTTTAC
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATATTCAACACACCATCCTTTTACCTATCTCGGCAATAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009253.1\|WP_011877969.1\|1770482_1770761_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_009253.1\|WP_011877970.1\|1771039_1773382_+\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_009253.1\|WP_011877968.1\|1768843_1770478_+\|CRISPR-associated-endonuclease-Cas4/Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_009253.1\|WP_011877959.1\|1755439_1755796_+\|50S-ribosomal-protein-L20	unknown	unknown	gnl\|CDD\|179959
NC_009253.1\|WP_083755152.1\|1773354_1773891_+\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	pfam03750_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_009253.1\|WP_011877972.1\|1773912_1774560_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_009253.1\|WP_011877965.1\|1763234_1763456_-\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_011877960.1\|1755991_1757326_+\|TrkH-family-potassium-uptake-protein	unknown	unknown	gnl\|CDD\|273349
NC_009253.1\|WP_011877958.1\|1755208_1755403_+\|50S-ribosomal-protein-L35	unknown	unknown	gnl\|CDD\|234676
NC_009253.1\|WP_011877962.1\|1757994_1758798_+\|RNA-methyltransferase	unknown	unknown	gnl\|CDD\|223640
NC_009253.1\|WP_011877963.1\|1759271_1760294_+\|phenylalanine--tRNA-ligase-subunit-alpha	unknown	unknown	gnl\|CDD\|234780
NC_009253.1\|WP_011877973.1\|1774575_1775505_+\|hypothetical-protein	csm4gr5	mkCas0089_csm4gr5_CAS-III-A:CAS-III-D	gnl\|CDD\|273866
NC_009253.1\|WP_011876481.1\|1766726_1767962_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|376564
NC_009253.1\|WP_011877975.1\|1776785_1777583_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|273848
NC_009253.1\|WP_011877976.1\|1777778_1778051_+\|cell-division-protein-ZapA	unknown	unknown	gnl\|CDD\|172616
NC_009253.1\|WP_041274543.1\|1754661_1755192_+\|translation-initiation-factor-IF-3	unknown	unknown	gnl\|CDD\|234582
NC_009253.1\|WP_011877961.1\|1757341_1757995_+\|TrkA-family-potassium-uptake-protein	unknown	unknown	gnl\|CDD\|223643
NC_009253.1\|WP_011877974.1\|1775509_1776769_+\|hypothetical-protein	csx1	cd09747_csx1_CAS-III	gnl\|CDD\|187833
NC_009253.1\|WP_011877966.1\|1763558_1764020_-\|WYL-domain-containing-protein	WYL	pfam13280_WYL_CAS-I:CAS-III	gnl\|CDD\|379100
NC_009253.1\|WP_011877964.1\|1760323_1762744_+\|phenylalanine--tRNA-ligase-subunit-beta	unknown	unknown	gnl\|CDD\|234804

Protein	Function_ID	Function_description	E-value
NC_009253.1\|WP_011877969.1\|1770482_1770761_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	5.71053e-24
NC_009253.1\|WP_011877970.1\|1771039_1773382_+\|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_009253.1\|WP_011877968.1\|1768843_1770478_+\|CRISPR-associated-endonuclease-Cas4/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.	1.32863e-123
NC_009253.1\|WP_011877959.1\|1755439_1755796_+\|50S-ribosomal-protein-L20	gnl\|CDD\|179959	PRK05185, rplT, 50S ribosomal protein L20; Provisional.	1.03535e-66
NC_009253.1\|WP_083755152.1\|1773354_1773891_+\|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.	6.9934e-08
NC_009253.1\|WP_011877972.1\|1773912_1774560_+\|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.	3.97159e-77
NC_009253.1\|WP_011877960.1\|1755991_1757326_+\|TrkH-family-potassium-uptake-protein	gnl\|CDD\|273349	TIGR00933, Trk_system_potassium_uptake_protein_trkH., potassium uptake protein, TrkH family. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system. [Transport and binding proteins, Cations and iron carrying compounds].	4.78714e-102
NC_009253.1\|WP_011877958.1\|1755208_1755403_+\|50S-ribosomal-protein-L35	gnl\|CDD\|234676	PRK00172, rpmI, 50S ribosomal protein L35; Reviewed.	8.04471e-24
NC_009253.1\|WP_011877962.1\|1757994_1758798_+\|RNA-methyltransferase	gnl\|CDD\|223640	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis].	3.18495e-79
NC_009253.1\|WP_011877963.1\|1759271_1760294_+\|phenylalanine--tRNA-ligase-subunit-alpha	gnl\|CDD\|234780	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated.	0
NC_009253.1\|WP_011877973.1\|1774575_1775505_+\|hypothetical-protein	gnl\|CDD\|273866	TIGR01903, Hypothetical_protein., CRISPR type III-A/MTUBE-associated RAMP protein Csm4. 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. Members of this cas gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm4, for CRISPR/cas Subtype Mtube, protein 4.	2.67645e-12
NC_009253.1\|WP_011876481.1\|1766726_1767962_+\|IS110-family-transposase	gnl\|CDD\|376564	pfam01548, DEDD_Tnp_IS110, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family includes an amino-terminal region of the pilin gene inverting protein (PIVML) and of members of the IS111A/IS1328/IS1533 family of transposases. The C-terminus is represented by family pfam02371.	1.18215e-28
NC_009253.1\|WP_011877975.1\|1776785_1777583_+\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	1.30542e-12
NC_009253.1\|WP_011877976.1\|1777778_1778051_+\|cell-division-protein-ZapA	gnl\|CDD\|172616	PRK14126, PRK14126, cell division protein ZapA; Provisional.	3.0888e-22
NC_009253.1\|WP_041274543.1\|1754661_1755192_+\|translation-initiation-factor-IF-3	gnl\|CDD\|234582	PRK00028, infC, translation initiation factor IF-3; Reviewed.	1.19428e-95
NC_009253.1\|WP_011877961.1\|1757341_1757995_+\|TrkA-family-potassium-uptake-protein	gnl\|CDD\|223643	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism].	5.69376e-58
NC_009253.1\|WP_011877974.1\|1775509_1776769_+\|hypothetical-protein	gnl\|CDD\|187833	cd09702, Csx1_III-U, CRISPR/Cas system-associated protein Csx1. 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; Protein of this family often fused to HTH domain; Some proteins could have an additional fusion with RecB-family nuclease domain; Core domain appears to have a Rossmann-like fold; loosely associated with CRISPR/Cas systems; also known as TIGR02710 family.	1.19219e-13
NC_009253.1\|WP_011877966.1\|1763558_1764020_-\|WYL-domain-containing-protein	gnl\|CDD\|379100	pfam13280, WYL, WYL domain. WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.	5.70452e-17
NC_009253.1\|WP_011877964.1\|1760323_1762744_+\|phenylalanine--tRNA-ligase-subunit-beta	gnl\|CDD\|234804	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed.	0

>NC_009253.1|WP_011877966.1|1763558_1764020_-|WYL-domain-containing-protein
MPLPHTLSVIKGKLLSLMLIRECEDWRNEIIKMTQRIIVHGQGQAGQQVIESVNQLVEQAIANHRAVCIDYRGQNYKISPLGIVYHWQRMDRYIIAINSKNSTIYNYRLDRVDRLELLKDTFVPPEDFVLASYLENCWGIYPAASKIIGDNAS
>NC_009253.1|WP_011877965.1|1763234_1763456_-|hypothetical-protein
MNNKMLMRVSAILNTLEAHPQGLSAVELSKYTTYPADQVLRDLNEILNNTDLGHYFAIFPDEQPDDPEEYLVD
>NC_009253.1|WP_011877964.1|1760323_1762744_+|phenylalanine--tRNA-ligase-subunit-beta
MRVSYQWLKDYVDIQITPQELADRLTLSGLAVDTVDELGTEIENVVTGRIVKIEKHPNADKLVVCQVDVGQEELLQIVTGATNVREGHVIPVALEGAKLAEGLQIKRSKLRGVESRGMLCSGQELGMETRLLSPDMANGILILPEDVPVGLDAKEILGLNDAVLELDLTPNRGDALSMIGVARDVAALLNTELKIPVPQFQENNEKIDKLAKIDIEDIDLCRRYVGRVIKGIKIGPSPIWLQNRLRAAGIRPISNVVDVTNYVMLEMGQPLHAFDYDKIANHHIIVRRAQEDEKIISLDGVERTLNPEMLAITDEAGPVAVAGVMGGLESEVTDATINILVESAYFHPINVRRTSKALGLRSESSMRFEKGIDINGCLRAADRALQLMQQLAGGMVVSGTIDKFPNPITEKTILLRPKRVNWVLGVDIPKQEIMRIMESLQFRVQEQEGDILVTVPTFRPDISGEWDLVEEVVRLYGFNQIPETLPFGATSQGVRTAEQQMNWDMRRIMTSCGFYEVVTYGFVHPRIFDLMNLPKDSIFRNCVKLQNPLSEEQSIMRTVLVPSLLEVLQKNSNRRAQSGAIFEIARVFYPQEGQPLPEEVPVLAAVAYGNTQKTWNQPARPMDYYFMKGVVEQLMEGLGAASTAFSRHQDPSFHPGRCAKIEVAGRMLGVVGELHPNVVENYELPSRAVAVKLDLKVLAEVNRPVKQYQGLPKFPTMERDLAVLVKLEVPAAEMLSIIQRAAGELLKETDIFDVYQGSQVPEGYKSVAFSMKFQAKDRTLTDEEINEKMQRITKSLFAQTGAELRK
>NC_009253.1|WP_011877963.1|1759271_1760294_+|phenylalanine--tRNA-ligase-subunit-alpha
MEQKLRTLAQEALAALESAKTPEALNDIRVKYLGKKGEVTQLLRGMGALSAEERPRVGQVANEVRASIEQALEERNARVKEAQKEQMLAAETIDVTLPGNQFGLGRMHPLTQVMQEIESIFMGLGFKIAEGPEVELDYYNFEALNLPKDHPARDMQDTFFINPEVLLRTHTSPVQVRTMEKMVPQVPIKIICPGRVYRRDDDATHSPMFHQVEGLVVDKHITFADLKGVLATFARQMFGLDTKTRLRPSYFPFTEPSAEVDISCFNCKGNGCRVCKGSGWLEILGSGMVHPRVLEMSGYNPEEVTGFAFGMGVERIAMLKYGIDDLRLLFDNDLRFLSQF
>NC_009253.1|WP_011877962.1|1757994_1758798_+|RNA-methyltransferase
MITSSQNLRVKLVKKLAQRNFRQKERKLAVEGIRFVEEALSSTWQTEILLYTDQACQAQRGKILLDLARDKGVEVLAVSDAIMKELSDTETPQGMLAVLRQPDYTLEDIIRPDQKPLVVIVDGVQDPGNLGTIIRSADAAGASGVILLKGTVDIYNPKTLRATMGSLFHLPVIQVSDVNEALEYLASIGVTLLVGEPAGGIPVFKANLQTPVGIIVANEGAGPREEIFRYNHQKITIPMPGCAESLNVAIATSIILYEAIRQRHKIQ
>NC_009253.1|WP_011877961.1|1757341_1757995_+|TrkA-family-potassium-uptake-protein
MKQFAVIGLGRFGSSVARTLSKMDYEVLGLDVNEERVNDIIEDVTHAVQLDALDDHSLQAVGIRNFDVVVVGIGQEVQSSILVTLMLKEMGVKRVVAKAQNDLHGKVLERVGADKVVFPERDMGIKLAHALVSQNIMEQISLSPEYSLVEMAAPPNFVNKTLEKSGARQQYGVSILAIRRGEDMIISPGASQEILEGDILVVIGKNEKLQKFDTVEV
>NC_009253.1|WP_011877960.1|1755991_1757326_+|TrkH-family-potassium-uptake-protein
MKNNKGFLSQPSRALAVGFAGLILLGGILLSLPVASASGQPTDFLTALFTSTSAVCVTGLVVVDTGTYWSTFGQVVIISLIQVGGLGFMTMAVLFWLILGRKVTFRERLLIQQSLNVIDLSGIIKLAKQVIVLTLTIQIFIATLLAVRFVPELGLQKGIAFSLFHAVSGFNNAGFDLFGDFRSLTQYTADPIVNFAIGLDIILGGIGFTVMTDAIRYRKRKKISLHSKLALYITAILLLFGMVVFLLLEFNNTLASLSFGGKLWASWFQSVTPRTAGFNTIDLTAMRPVTLFFIILLMFIGASPGSTGGGVKTTTFGIVVLALISLARGKEDAEVFYRRISKEQVYKGLGIILLAMGWIIFATLLLGAVEKADFLKILFEVVSALATVGLSAGLTPTLSDFGQVVIMFTMFLGRLGPLTVAYALATKQQRKQQFRYPEERIIIG
>NC_009253.1|WP_011877959.1|1755439_1755796_+|50S-ribosomal-protein-L20
MPRAKSSVVSRNRHRKILKLAKGYRGSRSKLFRVANQAVMKGLFYAYRDRRQKKRDFRKLWIARINAATRMNGLSYSRFINGLKKAGVEVNRKMLADLAVNDAKAFGQLVELAKSKLA
>NC_009253.1|WP_011877958.1|1755208_1755403_+|50S-ribosomal-protein-L35
MPKIKTHRGAAKRFKKTATGKIRGWHAFHSHILGKKTAKRKRNLRKSTIIHESDAVRISRLLPY
>NC_009253.1|WP_041274543.1|1754661_1755192_+|translation-initiation-factor-IF-3
MYISKQEQRINEEIRAREVRVVDAENNQLGIMSTKEALRLAEEKQLDLVEVAAQAKPPVCRIMDYGKFKYEQSKREKEAKKRQRIIQVKEVKLRPRIEDHDYSTKSKNAERFLKDGDKVKVTIMFRGREIVHTELGRALLERLAQDLKDICIVERHPKLEGKNMIMILAPKNEKQD
>NC_009253.1|WP_011876481.1|1766726_1767962_+|IS110-family-transposase
MSQMLVGIDVSLQSHHVQFMDGDGGALASFSIHNNRQGADTLIQKIVDTSDRIKSQSLRIGMEATSNLGWHLAHYLQEQLQTTCPQKDTQIYVLNARKVARFKKGYDTLPKNDRIDAWVIADHLRFGRLPHAMKDIIQYEALQRLTRTRFHLMQNITRDKTYFLNQVFLKFSGLRQDNPFSNLFGSTCLAVIQELEPEQIVAMSMEELVDFLKDKGKNRFDNPEEIALYLQKIARSSYRLNKAMADPVNISLATMLNVIKHMESEVKKLDKEIAKIMKGLPQTLTSVKGIGDVFTAGIMAETGDIQRFKDHNALAKYAGLTWNQHQSGEFEAEDTSRTRTGNKYLRYYLIQAADSVRKHVPEYKDFYQKKYDEVPKHKHKRALVLTARKLVRLVFSLLNTRQLYTSPERRG
>NC_009253.1|WP_011877968.1|1768843_1770478_+|CRISPR-associated-endonuclease-Cas4/Cas1
MAEHNISNEQHYFPISSVAEILYCPRNFYYRVVEGAEDSNHHLLEGKLQEERRDERQRLVREGYRQDRSIHVSSEKLNLYGIVDIVEQGKEIYPVEYKKGFRKESLNDDVQVCAQAMALEEKLGQDINRGYIYYAGSKARREVIFDEDLRLMVENAVGLARNIALSGEIPPPLADNRCEGCALVNRCLPFEVKGIKENKAKAVRPQPGINLGRVLYVDEQGASLYKKGERVLVTKDQIKFKDIPLCNLDQVVLVGNVNLSSQLIKLFLGRGTEVHFISTKGKYYGCLQAALSKNSVLRIAQHRAYQKQEERLLYASEFVRGKLSNMRTNLLRYNRSLNNHSIDEAVSRIKNIIKRLEKAKDLNELMGLEGAGSRDYFSVFGLLIKDRVPFDFNKRSRRPPEDPANALLSFSYSLLLKDVITAVQVVGFDPFIGFLHRSDFGRPALALDIIEEFRPVVADSVVLTALNKGVIAEGDFEYRMGGCFLSETGRKKMYRLYEERRKEMITHPVFGYRISYLRTIELQARFLAKVLTKEIDGYKPFLVR
>NC_009253.1|WP_011877969.1|1770482_1770761_+|CRISPR-associated-endonuclease-Cas2
MKQYIISYDITNDKRRNKIRKLLCDYAVPVQYSVFEARLSEEDYIMLRHKLSRLLRKDEDSIIFYLQCSRCRDGIIRLGNCSDPFGDGIYIV
>NC_009253.1|WP_011877970.1|1771039_1773382_+|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MIYETIQLAGLLHDIGVFFQRGNISNLNSLQYSEISARLIKSFSKQLSKICDSELLKNLILNQYEDTDFSQEAIPKNKINLTYLISRADRYSSSELEQDTVEIYNYKKRPMDAVFCHLEIGKKVPQRMQYSLAEYRPENGFPREIISHTEGEINKILTDFSLEFKNIVSNIKSFECFYNQLYSLLLKYTWCIPYNTREKIADISLFDHLKTTSAIATCLYQYHNFCNDYSIPSIIDDQTFKFRLLVGDLSGIQSYIFSGANVGAGGVAKRLRARSFILSMLSELISYQIIKSFNLTVANILMASGGKFYILLPNTKESVSRLEKLQQKLDKYLLQEFKGEIALNLAHQELNGNDFCQFGSAVSRLSKKLAVKKKMPFANVMYSQEEWKEGQFIFHAEDTKGLGICKGCEKEFAIQQVEDKVYGPACLRDLKIGQKLPRIKSFALTDGEADIKISGSYGIRLYDNVPSNTDLDIVILNDNKIDPNVSMTNRYMANYVPNNQGITKSFDEICQNSSGVKKLAYFKADVDNLGGLFAFGFKGGLESGQNKDYDSISRVTTFSRMLDLFFSGRVNQLVSNEFTNCYIVFSGGDDLLVVGPWDEIIEFSLKIYQEFRKFVAYNDNITISAGIGLAKSKTPVVKAVQVAEDLLEEAKEKVLRGNKTGRNQVSIFDRTLSWHDFSAAVQEGKRLAKWITEGKLNRSDIWKLKRYDQMFQDFWQNHRVEGLKYQALLAYDIGRKRKENKDCQEVTRWQECLFSITNPSLINLGVITDYALCATRGGNI
>NC_009253.1|WP_083755152.1|1773354_1773891_+|type-III-A-CRISPR-associated-protein-Csm2
MCNQGREYLMSDWKKQLQGYKDKQGNRNQPHQGKRDKNDMGYQRYTTPGLPDGYLSKGYFDDQGCLLEILLTETASKIAKSFGSNMNNSQLRRFYGHAKTAEKSYAFSGDERKFINDIKALDSFVAEAKGKDKVPQIFYDFINVNVAKANSLKDIKQGFLPHFQAVVAYFTYHYPKSK
>NC_009253.1|WP_011877972.1|1773912_1774560_+|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MKLLKTSIIKGKIECITGMRIGGSAEAIEIGGIDNPVIKHPVNNEPYIPGSSLKGKMRSQMEKIEGKVNEKPCGCADKGCMVCRVFGPHNRPKHDLGPTRILVRDAMLSDESRQEMIRIIQEGKSYIEIKTENIIVRTTGVANHPRTQERVPAGAKFDFEIVVQVFDIDLEKDVIDFVKKALKSVENSYLGSSGSRGYGQVHFTKLTLDGEEFKL
>NC_009253.1|WP_011877973.1|1774575_1775505_+|hypothetical-protein
MKLYKLKIEPKSSQITPWHSDTIFGSLCWVLAQSRGQEKLRDFLHEYTGNCYPMVVSNGFPGDYLPKPMGGNTFNTNDNRIKQEAIRLAQKAKEAKKTNLLSLEEFNTIINNGQVEIKPKEKLYLENGVMHNQLSRLTGTTSDGSLYELTETFWSSSHISIYLGISSGWEKEVFTLFEILSLKGFGKRISVGKGYFKIMDCTEFKDLTIPESPNSIVTLSNYVPRSHDPYLGQYKTFVKYGKLGQNYAVSGNPFKKPLLMIMPGAVFWTENPQFAYGRMVKGISPSYPEVVQCGCALAIPSYIEKVEME
>NC_009253.1|WP_011877974.1|1775509_1776769_+|hypothetical-protein
MDILISAVGVRDPYAKDGSKGAVLTLVDKLKPDICFLFGTDPGVNEEVENTHQRALQIKQIVKESVKIISIPMVLPDPTDHREILLCFEQHLNEIITKYHTTKPHYHVNVSSGTSQMHAALMLLFNGRRLKAKIYQVKEPRFVNCEAERVAEVDASFIEEENYIFRAKKFFLNFNFSAAQDELIELALFTTREKRQKRAELFSDICRAYKYWDRYEHEQARDILEKLIVDIQRFKINELADITIRQINILKSICANKPRETVATIKDLLHNANRKKIIGEYGDCLNRYKRLIDGLAACKCGLTGSKRVNDQPVWVQDILIHKKKNDNLYYSDYLTIYREKNNKEMIPQSLNDKMLSLNRRRNTSYVAHGMDSVSKQDAEESINILWKMATSLFSGEKWKEYEFSADVILNISELLFNDL
>NC_009253.1|WP_011877975.1|1776785_1777583_+|CRISPR-associated-endoribonuclease-Cas6
MLTALQVELEAVADGALPVGNALYIHGLFFRLLQEVNINISDYLHNVQSIKPYTLSTLQGVKQNKGWCSVCQGKKYRFRATFMQEEVFLNFYEVVYSYYVNKKTVKIGNIDFLVSKIDLERTNKFEDLIGNEVNLQKFEIDFLSPTNFRVNGIQHIFPDSHTVFKSYKNRWNTFCPNHLIFPEHDLSLIYDGCYSVRYNLHTEIIEMGKYKMVGFKGTCRYEINPKLSGELRDRASGLLKFARYCGTGYKTTMGLGQTKVSFMIK
>NC_009253.1|WP_011877976.1|1777778_1778051_+|cell-division-protein-ZapA
MSNQANRVEVEIFGEYYTLKGHESPEYMLKVAHLVNKKMMEISERNPILSSNKVAVLTVVNLIDELLKLQEQYNNLLQMMDPEKGDSSNS

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Crispr_ID: NC_009253_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009253_5

1768139-1768717

TypeIII

Consensus_repeat	Method
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	PILER-CR
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CRISPRCasFinder
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CRT

7 spacers

WYL,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csx1,cas6

The CRISPR arrays of NC_009253_5

>merge|NC_009253|5|1768139-1768717|PILER-CR,CRISPRCasFinder,CRT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACAAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTAAATTTCTTTTATGTTCCTTCCATCTGCCTAATATATCAATAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACCTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCATGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTATCCTAGTGTTTCATTTAAGCATTCAATTTCTTTTGCAAGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACTTTTCTTCTGCTGTTTTTAATGTCTGTCCTGAAAGTTGTTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAAACAAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTTGTCAAAACACAAAATAATTCCCTTTGGGAATTGAACCCTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCATGTCAAAACACAAAATAATTCCCTTTGGGAATATTTGG

>NC_009253|5|4|1768139-1768486|PILER-CR
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TAAATTTCTTTTATGTTCCTTCCATCTGCCTAATATATCAATA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATCCTAGTGTTTCATTTAAGCATTCAATTTCTTTTGCAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC

>NC_009253|5|5|1768139-1768717|CRISPRCasFinder
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TAAATTTCTTTTATGTTCCTTCCATCTGCCTAATATATCAATA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATCCTAGTGTTTCATTTAAGCATTCAATTTCTTTTGCAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TTTTCTTCTGCTGTTTTTAATGTCTGTCCTGAAAGTTGTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAACC	CTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCAT
GTCAAAACACAAAATAATTCCCTTTGGGAATATTTGG

>NC_009253|5|4|1768139-1768717|CRT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TAAATTTCTTTTATGTTCCTTCCATCTGCCTAATATATCAATA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	CTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCAT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TATCCTAGTGTTTCATTTAAGCATTCAATTTCTTTTGCAA
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	TTTTCTTCTGCTGTTTTTAATGTCTGTCCTGAAAGTTGTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAAAC	AAAAACCGAGTCTTCGAGAATTAACCTACCAACACAGTTT
GTCAAAACACAAAATAATTCCCTTTGGGAATTGAACC	CTTGATTTATTATCTTCAGATTCACTATCTGCTCCAGCAT
GTCAAAACACAAAATAATTCCCTTTGGGAATATTTGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009253.1\|WP_011877969.1\|1770482_1770761_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_009253.1\|WP_011877970.1\|1771039_1773382_+\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_009253.1\|WP_011877968.1\|1768843_1770478_+\|CRISPR-associated-endonuclease-Cas4/Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|376633
NC_009253.1\|WP_011877959.1\|1755439_1755796_+\|50S-ribosomal-protein-L20	unknown	unknown	gnl\|CDD\|179959
NC_009253.1\|WP_011877977.1\|1778178_1779888_+\|DNA-polymerase/3'-5'-exonuclease-PolX	unknown	unknown	gnl\|CDD\|236311
NC_009253.1\|WP_083755152.1\|1773354_1773891_+\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	pfam03750_csm2gr11_CAS-III-A	gnl\|CDD\|367635
NC_009253.1\|WP_011877972.1\|1773912_1774560_+\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_009253.1\|WP_011876481.1\|1766726_1767962_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|376564
NC_009253.1\|WP_011877960.1\|1755991_1757326_+\|TrkH-family-potassium-uptake-protein	unknown	unknown	gnl\|CDD\|273349
NC_009253.1\|WP_011877958.1\|1755208_1755403_+\|50S-ribosomal-protein-L35	unknown	unknown	gnl\|CDD\|234676
NC_009253.1\|WP_011877962.1\|1757994_1758798_+\|RNA-methyltransferase	unknown	unknown	gnl\|CDD\|223640
NC_009253.1\|WP_011877963.1\|1759271_1760294_+\|phenylalanine--tRNA-ligase-subunit-alpha	unknown	unknown	gnl\|CDD\|234780
NC_009253.1\|WP_011877973.1\|1774575_1775505_+\|hypothetical-protein	csm4gr5	mkCas0089_csm4gr5_CAS-III-A:CAS-III-D	gnl\|CDD\|273866
NC_009253.1\|WP_011877965.1\|1763234_1763456_-\|hypothetical-protein	unknown	unknown	unknown
NC_009253.1\|WP_011877975.1\|1776785_1777583_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	pfam10040_cas6_CAS-III:CAS-IV	gnl\|CDD\|273848
NC_009253.1\|WP_011877976.1\|1777778_1778051_+\|cell-division-protein-ZapA	unknown	unknown	gnl\|CDD\|172616
NC_009253.1\|WP_011877961.1\|1757341_1757995_+\|TrkA-family-potassium-uptake-protein	unknown	unknown	gnl\|CDD\|223643
NC_009253.1\|WP_011877974.1\|1775509_1776769_+\|hypothetical-protein	csx1	cd09747_csx1_CAS-III	gnl\|CDD\|187833
NC_009253.1\|WP_011877966.1\|1763558_1764020_-\|WYL-domain-containing-protein	WYL	pfam13280_WYL_CAS-I:CAS-III	gnl\|CDD\|379100
NC_009253.1\|WP_011877964.1\|1760323_1762744_+\|phenylalanine--tRNA-ligase-subunit-beta	unknown	unknown	gnl\|CDD\|234804

Protein	Function_ID	Function_description	E-value
NC_009253.1\|WP_011877969.1\|1770482_1770761_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	5.71053e-24
NC_009253.1\|WP_011877970.1\|1771039_1773382_+\|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_009253.1\|WP_011877968.1\|1768843_1770478_+\|CRISPR-associated-endonuclease-Cas4/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.	1.32863e-123
NC_009253.1\|WP_011877959.1\|1755439_1755796_+\|50S-ribosomal-protein-L20	gnl\|CDD\|179959	PRK05185, rplT, 50S ribosomal protein L20; Provisional.	1.03535e-66
NC_009253.1\|WP_011877977.1\|1778178_1779888_+\|DNA-polymerase/3'-5'-exonuclease-PolX	gnl\|CDD\|236311	PRK08609, PRK08609, DNA polymerase/3'-5' exonuclease PolX.	0
NC_009253.1\|WP_083755152.1\|1773354_1773891_+\|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.	6.9934e-08
NC_009253.1\|WP_011877972.1\|1773912_1774560_+\|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.	3.97159e-77
NC_009253.1\|WP_011877960.1\|1755991_1757326_+\|TrkH-family-potassium-uptake-protein	gnl\|CDD\|273349	TIGR00933, Trk_system_potassium_uptake_protein_trkH., potassium uptake protein, TrkH family. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and wheat. The proteins of E. coli K12 TrkH and TrkG as well as several yeast proteins have been functionally characterized.The E. coli TrkH and TrkG proteins are complexed to two peripheral membrane proteins, TrkA, an NAD-binding protein, and TrkE, an ATP-binding protein. This complex forms the potassium uptake system. [Transport and binding proteins, Cations and iron carrying compounds].	4.78714e-102
NC_009253.1\|WP_011877958.1\|1755208_1755403_+\|50S-ribosomal-protein-L35	gnl\|CDD\|234676	PRK00172, rpmI, 50S ribosomal protein L35; Reviewed.	8.04471e-24
NC_009253.1\|WP_011877962.1\|1757994_1758798_+\|RNA-methyltransferase	gnl\|CDD\|223640	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis].	3.18495e-79
NC_009253.1\|WP_011877963.1\|1759271_1760294_+\|phenylalanine--tRNA-ligase-subunit-alpha	gnl\|CDD\|234780	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated.	0
NC_009253.1\|WP_011877973.1\|1774575_1775505_+\|hypothetical-protein	gnl\|CDD\|273866	TIGR01903, Hypothetical_protein., CRISPR type III-A/MTUBE-associated RAMP protein Csm4. 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. Members of this cas gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm4, for CRISPR/cas Subtype Mtube, protein 4.	2.67645e-12
NC_009253.1\|WP_011876481.1\|1766726_1767962_+\|IS110-family-transposase	gnl\|CDD\|376564	pfam01548, DEDD_Tnp_IS110, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family includes an amino-terminal region of the pilin gene inverting protein (PIVML) and of members of the IS111A/IS1328/IS1533 family of transposases. The C-terminus is represented by family pfam02371.	1.18215e-28
NC_009253.1\|WP_011877975.1\|1776785_1777583_+\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	1.30542e-12
NC_009253.1\|WP_011877976.1\|1777778_1778051_+\|cell-division-protein-ZapA	gnl\|CDD\|172616	PRK14126, PRK14126, cell division protein ZapA; Provisional.	3.0888e-22
NC_009253.1\|WP_011877961.1\|1757341_1757995_+\|TrkA-family-potassium-uptake-protein	gnl\|CDD\|223643	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism].	5.69376e-58
NC_009253.1\|WP_011877974.1\|1775509_1776769_+\|hypothetical-protein	gnl\|CDD\|187833	cd09702, Csx1_III-U, CRISPR/Cas system-associated protein Csx1. 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; Protein of this family often fused to HTH domain; Some proteins could have an additional fusion with RecB-family nuclease domain; Core domain appears to have a Rossmann-like fold; loosely associated with CRISPR/Cas systems; also known as TIGR02710 family.	1.19219e-13
NC_009253.1\|WP_011877966.1\|1763558_1764020_-\|WYL-domain-containing-protein	gnl\|CDD\|379100	pfam13280, WYL, WYL domain. WYL is a Sm-like SH3 beta-barrel fold containing domain. It is a member of the WYL-like superfamily, named for three conserved amino acids found in a subset of the superfamily. However, these residues are not strongly conserved throughout the family. Rather, the conservation pattern includes four basic residues and a position often occupied by a cysteine, which are predicted to line a ligand-binding groove typical of the Sm-like SH3 beta-barrels. A WYL domain protein (sll7009) is a negative regulator of the I-D CRISPR-Cas system in Synechocystis sp. It is predicted to be a ligand-sensing domain that could bind negatively charged ligands, such as nucleotides or nucleic acid fragments, to regulate CRISPR-Cas and other defense systems such as the abortive infection AbiG system.	5.70452e-17
NC_009253.1\|WP_011877964.1\|1760323_1762744_+\|phenylalanine--tRNA-ligase-subunit-beta	gnl\|CDD\|234804	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed.	0

>NC_009253.1|WP_011876481.1|1766726_1767962_+|IS110-family-transposase
MSQMLVGIDVSLQSHHVQFMDGDGGALASFSIHNNRQGADTLIQKIVDTSDRIKSQSLRIGMEATSNLGWHLAHYLQEQLQTTCPQKDTQIYVLNARKVARFKKGYDTLPKNDRIDAWVIADHLRFGRLPHAMKDIIQYEALQRLTRTRFHLMQNITRDKTYFLNQVFLKFSGLRQDNPFSNLFGSTCLAVIQELEPEQIVAMSMEELVDFLKDKGKNRFDNPEEIALYLQKIARSSYRLNKAMADPVNISLATMLNVIKHMESEVKKLDKEIAKIMKGLPQTLTSVKGIGDVFTAGIMAETGDIQRFKDHNALAKYAGLTWNQHQSGEFEAEDTSRTRTGNKYLRYYLIQAADSVRKHVPEYKDFYQKKYDEVPKHKHKRALVLTARKLVRLVFSLLNTRQLYTSPERRG
>NC_009253.1|WP_011877966.1|1763558_1764020_-|WYL-domain-containing-protein
MPLPHTLSVIKGKLLSLMLIRECEDWRNEIIKMTQRIIVHGQGQAGQQVIESVNQLVEQAIANHRAVCIDYRGQNYKISPLGIVYHWQRMDRYIIAINSKNSTIYNYRLDRVDRLELLKDTFVPPEDFVLASYLENCWGIYPAASKIIGDNAS
>NC_009253.1|WP_011877965.1|1763234_1763456_-|hypothetical-protein
MNNKMLMRVSAILNTLEAHPQGLSAVELSKYTTYPADQVLRDLNEILNNTDLGHYFAIFPDEQPDDPEEYLVD
>NC_009253.1|WP_011877964.1|1760323_1762744_+|phenylalanine--tRNA-ligase-subunit-beta
MRVSYQWLKDYVDIQITPQELADRLTLSGLAVDTVDELGTEIENVVTGRIVKIEKHPNADKLVVCQVDVGQEELLQIVTGATNVREGHVIPVALEGAKLAEGLQIKRSKLRGVESRGMLCSGQELGMETRLLSPDMANGILILPEDVPVGLDAKEILGLNDAVLELDLTPNRGDALSMIGVARDVAALLNTELKIPVPQFQENNEKIDKLAKIDIEDIDLCRRYVGRVIKGIKIGPSPIWLQNRLRAAGIRPISNVVDVTNYVMLEMGQPLHAFDYDKIANHHIIVRRAQEDEKIISLDGVERTLNPEMLAITDEAGPVAVAGVMGGLESEVTDATINILVESAYFHPINVRRTSKALGLRSESSMRFEKGIDINGCLRAADRALQLMQQLAGGMVVSGTIDKFPNPITEKTILLRPKRVNWVLGVDIPKQEIMRIMESLQFRVQEQEGDILVTVPTFRPDISGEWDLVEEVVRLYGFNQIPETLPFGATSQGVRTAEQQMNWDMRRIMTSCGFYEVVTYGFVHPRIFDLMNLPKDSIFRNCVKLQNPLSEEQSIMRTVLVPSLLEVLQKNSNRRAQSGAIFEIARVFYPQEGQPLPEEVPVLAAVAYGNTQKTWNQPARPMDYYFMKGVVEQLMEGLGAASTAFSRHQDPSFHPGRCAKIEVAGRMLGVVGELHPNVVENYELPSRAVAVKLDLKVLAEVNRPVKQYQGLPKFPTMERDLAVLVKLEVPAAEMLSIIQRAAGELLKETDIFDVYQGSQVPEGYKSVAFSMKFQAKDRTLTDEEINEKMQRITKSLFAQTGAELRK
>NC_009253.1|WP_011877963.1|1759271_1760294_+|phenylalanine--tRNA-ligase-subunit-alpha
MEQKLRTLAQEALAALESAKTPEALNDIRVKYLGKKGEVTQLLRGMGALSAEERPRVGQVANEVRASIEQALEERNARVKEAQKEQMLAAETIDVTLPGNQFGLGRMHPLTQVMQEIESIFMGLGFKIAEGPEVELDYYNFEALNLPKDHPARDMQDTFFINPEVLLRTHTSPVQVRTMEKMVPQVPIKIICPGRVYRRDDDATHSPMFHQVEGLVVDKHITFADLKGVLATFARQMFGLDTKTRLRPSYFPFTEPSAEVDISCFNCKGNGCRVCKGSGWLEILGSGMVHPRVLEMSGYNPEEVTGFAFGMGVERIAMLKYGIDDLRLLFDNDLRFLSQF
>NC_009253.1|WP_011877962.1|1757994_1758798_+|RNA-methyltransferase
MITSSQNLRVKLVKKLAQRNFRQKERKLAVEGIRFVEEALSSTWQTEILLYTDQACQAQRGKILLDLARDKGVEVLAVSDAIMKELSDTETPQGMLAVLRQPDYTLEDIIRPDQKPLVVIVDGVQDPGNLGTIIRSADAAGASGVILLKGTVDIYNPKTLRATMGSLFHLPVIQVSDVNEALEYLASIGVTLLVGEPAGGIPVFKANLQTPVGIIVANEGAGPREEIFRYNHQKITIPMPGCAESLNVAIATSIILYEAIRQRHKIQ
>NC_009253.1|WP_011877961.1|1757341_1757995_+|TrkA-family-potassium-uptake-protein
MKQFAVIGLGRFGSSVARTLSKMDYEVLGLDVNEERVNDIIEDVTHAVQLDALDDHSLQAVGIRNFDVVVVGIGQEVQSSILVTLMLKEMGVKRVVAKAQNDLHGKVLERVGADKVVFPERDMGIKLAHALVSQNIMEQISLSPEYSLVEMAAPPNFVNKTLEKSGARQQYGVSILAIRRGEDMIISPGASQEILEGDILVVIGKNEKLQKFDTVEV
>NC_009253.1|WP_011877960.1|1755991_1757326_+|TrkH-family-potassium-uptake-protein
MKNNKGFLSQPSRALAVGFAGLILLGGILLSLPVASASGQPTDFLTALFTSTSAVCVTGLVVVDTGTYWSTFGQVVIISLIQVGGLGFMTMAVLFWLILGRKVTFRERLLIQQSLNVIDLSGIIKLAKQVIVLTLTIQIFIATLLAVRFVPELGLQKGIAFSLFHAVSGFNNAGFDLFGDFRSLTQYTADPIVNFAIGLDIILGGIGFTVMTDAIRYRKRKKISLHSKLALYITAILLLFGMVVFLLLEFNNTLASLSFGGKLWASWFQSVTPRTAGFNTIDLTAMRPVTLFFIILLMFIGASPGSTGGGVKTTTFGIVVLALISLARGKEDAEVFYRRISKEQVYKGLGIILLAMGWIIFATLLLGAVEKADFLKILFEVVSALATVGLSAGLTPTLSDFGQVVIMFTMFLGRLGPLTVAYALATKQQRKQQFRYPEERIIIG
>NC_009253.1|WP_011877959.1|1755439_1755796_+|50S-ribosomal-protein-L20
MPRAKSSVVSRNRHRKILKLAKGYRGSRSKLFRVANQAVMKGLFYAYRDRRQKKRDFRKLWIARINAATRMNGLSYSRFINGLKKAGVEVNRKMLADLAVNDAKAFGQLVELAKSKLA
>NC_009253.1|WP_011877958.1|1755208_1755403_+|50S-ribosomal-protein-L35
MPKIKTHRGAAKRFKKTATGKIRGWHAFHSHILGKKTAKRKRNLRKSTIIHESDAVRISRLLPY
>NC_009253.1|WP_011877968.1|1768843_1770478_+|CRISPR-associated-endonuclease-Cas4/Cas1
MAEHNISNEQHYFPISSVAEILYCPRNFYYRVVEGAEDSNHHLLEGKLQEERRDERQRLVREGYRQDRSIHVSSEKLNLYGIVDIVEQGKEIYPVEYKKGFRKESLNDDVQVCAQAMALEEKLGQDINRGYIYYAGSKARREVIFDEDLRLMVENAVGLARNIALSGEIPPPLADNRCEGCALVNRCLPFEVKGIKENKAKAVRPQPGINLGRVLYVDEQGASLYKKGERVLVTKDQIKFKDIPLCNLDQVVLVGNVNLSSQLIKLFLGRGTEVHFISTKGKYYGCLQAALSKNSVLRIAQHRAYQKQEERLLYASEFVRGKLSNMRTNLLRYNRSLNNHSIDEAVSRIKNIIKRLEKAKDLNELMGLEGAGSRDYFSVFGLLIKDRVPFDFNKRSRRPPEDPANALLSFSYSLLLKDVITAVQVVGFDPFIGFLHRSDFGRPALALDIIEEFRPVVADSVVLTALNKGVIAEGDFEYRMGGCFLSETGRKKMYRLYEERRKEMITHPVFGYRISYLRTIELQARFLAKVLTKEIDGYKPFLVR
>NC_009253.1|WP_011877969.1|1770482_1770761_+|CRISPR-associated-endonuclease-Cas2
MKQYIISYDITNDKRRNKIRKLLCDYAVPVQYSVFEARLSEEDYIMLRHKLSRLLRKDEDSIIFYLQCSRCRDGIIRLGNCSDPFGDGIYIV
>NC_009253.1|WP_011877970.1|1771039_1773382_+|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MIYETIQLAGLLHDIGVFFQRGNISNLNSLQYSEISARLIKSFSKQLSKICDSELLKNLILNQYEDTDFSQEAIPKNKINLTYLISRADRYSSSELEQDTVEIYNYKKRPMDAVFCHLEIGKKVPQRMQYSLAEYRPENGFPREIISHTEGEINKILTDFSLEFKNIVSNIKSFECFYNQLYSLLLKYTWCIPYNTREKIADISLFDHLKTTSAIATCLYQYHNFCNDYSIPSIIDDQTFKFRLLVGDLSGIQSYIFSGANVGAGGVAKRLRARSFILSMLSELISYQIIKSFNLTVANILMASGGKFYILLPNTKESVSRLEKLQQKLDKYLLQEFKGEIALNLAHQELNGNDFCQFGSAVSRLSKKLAVKKKMPFANVMYSQEEWKEGQFIFHAEDTKGLGICKGCEKEFAIQQVEDKVYGPACLRDLKIGQKLPRIKSFALTDGEADIKISGSYGIRLYDNVPSNTDLDIVILNDNKIDPNVSMTNRYMANYVPNNQGITKSFDEICQNSSGVKKLAYFKADVDNLGGLFAFGFKGGLESGQNKDYDSISRVTTFSRMLDLFFSGRVNQLVSNEFTNCYIVFSGGDDLLVVGPWDEIIEFSLKIYQEFRKFVAYNDNITISAGIGLAKSKTPVVKAVQVAEDLLEEAKEKVLRGNKTGRNQVSIFDRTLSWHDFSAAVQEGKRLAKWITEGKLNRSDIWKLKRYDQMFQDFWQNHRVEGLKYQALLAYDIGRKRKENKDCQEVTRWQECLFSITNPSLINLGVITDYALCATRGGNI
>NC_009253.1|WP_083755152.1|1773354_1773891_+|type-III-A-CRISPR-associated-protein-Csm2
MCNQGREYLMSDWKKQLQGYKDKQGNRNQPHQGKRDKNDMGYQRYTTPGLPDGYLSKGYFDDQGCLLEILLTETASKIAKSFGSNMNNSQLRRFYGHAKTAEKSYAFSGDERKFINDIKALDSFVAEAKGKDKVPQIFYDFINVNVAKANSLKDIKQGFLPHFQAVVAYFTYHYPKSK
>NC_009253.1|WP_011877972.1|1773912_1774560_+|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MKLLKTSIIKGKIECITGMRIGGSAEAIEIGGIDNPVIKHPVNNEPYIPGSSLKGKMRSQMEKIEGKVNEKPCGCADKGCMVCRVFGPHNRPKHDLGPTRILVRDAMLSDESRQEMIRIIQEGKSYIEIKTENIIVRTTGVANHPRTQERVPAGAKFDFEIVVQVFDIDLEKDVIDFVKKALKSVENSYLGSSGSRGYGQVHFTKLTLDGEEFKL
>NC_009253.1|WP_011877973.1|1774575_1775505_+|hypothetical-protein
MKLYKLKIEPKSSQITPWHSDTIFGSLCWVLAQSRGQEKLRDFLHEYTGNCYPMVVSNGFPGDYLPKPMGGNTFNTNDNRIKQEAIRLAQKAKEAKKTNLLSLEEFNTIINNGQVEIKPKEKLYLENGVMHNQLSRLTGTTSDGSLYELTETFWSSSHISIYLGISSGWEKEVFTLFEILSLKGFGKRISVGKGYFKIMDCTEFKDLTIPESPNSIVTLSNYVPRSHDPYLGQYKTFVKYGKLGQNYAVSGNPFKKPLLMIMPGAVFWTENPQFAYGRMVKGISPSYPEVVQCGCALAIPSYIEKVEME
>NC_009253.1|WP_011877974.1|1775509_1776769_+|hypothetical-protein
MDILISAVGVRDPYAKDGSKGAVLTLVDKLKPDICFLFGTDPGVNEEVENTHQRALQIKQIVKESVKIISIPMVLPDPTDHREILLCFEQHLNEIITKYHTTKPHYHVNVSSGTSQMHAALMLLFNGRRLKAKIYQVKEPRFVNCEAERVAEVDASFIEEENYIFRAKKFFLNFNFSAAQDELIELALFTTREKRQKRAELFSDICRAYKYWDRYEHEQARDILEKLIVDIQRFKINELADITIRQINILKSICANKPRETVATIKDLLHNANRKKIIGEYGDCLNRYKRLIDGLAACKCGLTGSKRVNDQPVWVQDILIHKKKNDNLYYSDYLTIYREKNNKEMIPQSLNDKMLSLNRRRNTSYVAHGMDSVSKQDAEESINILWKMATSLFSGEKWKEYEFSADVILNISELLFNDL
>NC_009253.1|WP_011877975.1|1776785_1777583_+|CRISPR-associated-endoribonuclease-Cas6
MLTALQVELEAVADGALPVGNALYIHGLFFRLLQEVNINISDYLHNVQSIKPYTLSTLQGVKQNKGWCSVCQGKKYRFRATFMQEEVFLNFYEVVYSYYVNKKTVKIGNIDFLVSKIDLERTNKFEDLIGNEVNLQKFEIDFLSPTNFRVNGIQHIFPDSHTVFKSYKNRWNTFCPNHLIFPEHDLSLIYDGCYSVRYNLHTEIIEMGKYKMVGFKGTCRYEINPKLSGELRDRASGLLKFARYCGTGYKTTMGLGQTKVSFMIK
>NC_009253.1|WP_011877976.1|1777778_1778051_+|cell-division-protein-ZapA
MSNQANRVEVEIFGEYYTLKGHESPEYMLKVAHLVNKKMMEISERNPILSSNKVAVLTVVNLIDELLKLQEQYNNLLQMMDPEKGDSSNS
>NC_009253.1|WP_011877977.1|1778178_1779888_+|DNA-polymerase/3'-5'-exonuclease-PolX
MQNIEVAWIFTELADLLELNGEDIYKIRAYRRAAEVIAKVEEPLQELHRRKLLSKLPGVGKAIEGKIEEILETGKLAKHQKLLQEIPLGVLEIKQLPGIGPNRARTLYKELGISNLAELEQAVQQRQVRTLKGFSAKVEWDILNGIEMIRNRRGRTRLSVSRELAEELIKFFKLLPGTVEIEVAGSTRRWKETVGDLDLVAAAEEPAPLLRALATHPRVKDILEEQENRIRVYTWWGIAVDLQVVSPSEFVATLHRSTGSKAHYAKLQKIAEEQQLRLSHHGLRNQQDHFLPIRQEAEIYQALGMAYVPPELREDNGEVETALAGKLPPLIELADIKGDLHIHTTWSDSALEIDDIINRCREKGYSYAAITDHSRSLKIANGLDLDRLEQQHQIIRERDQELADFALLTGVEMDILPNGELDYPDEILEKMDVVIGSVHMGFKQSKKDMTRRITKAMENEHVDIIAHMSGRILGKREPYDIDMEALIETAAKTGTILEINSSPDRLDINEVYARKARDMGVKISINTDAHDLRRLDEMVYGVAVARRAWLEPQDVINTLNIEDLREVLR

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Identity
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	196360-196397	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	572765-572802	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	671686-671723	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	839709-839746	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	2851086-2851123	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	3410144-3410181	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	3520097-3520134	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	326577-326614	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	1106496-1106533	1.0
NC_009253_2	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	NC_009253.1	1518654-1518691	1.0

1. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 196360-196397, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

2. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 572765-572802, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

3. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 671686-671723, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

4. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 839709-839746, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

5. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 2851086-2851123, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

6. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 3410144-3410181, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

7. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 3520097-3520134, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

8. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 326577-326614, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

9. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 1106496-1106533, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

10. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to position: 1518654-1518691, mismatch: 0, identity: 1.0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_009253_1	1.21\|587012\|27\|NC_009253\|CRT	587012-587038	27	NZ_CP040345	Bacillus albus strain DLOU-Yingkou plasmid unnamed1, complete sequence	451896-451922	6	0.778
NC_009253_2	2.29\|1081794\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1081794-1081827	34	MN693075	Marine virus AFVG_25M503, complete genome	25515-25548	6	0.824
NC_009253_2	2.41\|1082593\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082593-1082625	33	MF403008	Agrobacterium phage Atu_ph07, complete genome	37469-37501	6	0.818
NC_009253_2	2.50\|1083194\|32\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1083194-1083225	32	KP282673	Acidianus bottle-shaped virus 2 strain ABV2, complete genome	4792-4823	6	0.812
NC_009253_1	1.12\|587145\|35\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	587145-587179	35	NZ_CP022118	Salmonella enterica subsp. enterica serovar Macclesfield str. S-1643 plasmid unnamed1, complete sequence	57921-57955	7	0.8
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	NC_019507	Campylobacter phage CP21, complete genome	4275-4307	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	MT932329	Campylobacter phage F379, complete genome	66001-66033	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	HE815464	Campylobacter phage CP21 complete sequence	4275-4307	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	MK408758	Campylobacter phage CP20, complete genome	93607-93639	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	FN667789	Campylobacter phage CPt10, complete genome	93441-93473	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	NZ_CP040048	Acinetobacter baumannii strain VB1190 plasmid unnamed1, complete sequence	474593-474625	7	0.788
NC_009253_2	2.41\|1082593\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082593-1082625	33	MK295204	Shigella phage vB_SdyM_006, complete genome	135988-136020	7	0.788
NC_009253_2	2.41\|1082593\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082593-1082625	33	MG696114	Proteus phage phiP4-3, complete genome	29701-29733	7	0.788
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	MN692960	Marine virus AFVG_117M7, complete genome	7849-7881	8	0.758
NC_009253_2	2.6\|1080266\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080266-1080298	33	NC_014633	Ilyobacter polytropus DSM 2926 plasmid pILYOP01, complete sequence	180370-180402	8	0.758
NC_009253_2	2.7\|1080331\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080331-1080364	34	MN693120	Marine virus AFVG_25M98, complete genome	58008-58041	8	0.765
NC_009253_2	2.50\|1083194\|32\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1083194-1083225	32	NC_010470	Leuconostoc citreum KM20 plasmid pLCK1, complete sequence	37411-37442	8	0.75
NC_009253_2	2.50\|1083194\|32\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1083194-1083225	32	JQ340088	Halocynthia phage JM-2012, complete genome	33899-33930	8	0.75
NC_009253_3	3.1\|1086763\|33\|NC_009253\|CRISPRCasFinder	1086763-1086795	33	NZ_CP017077	Novosphingobium resinovorum strain SA1 plasmid pSA2, complete sequence	386255-386287	8	0.758
NC_009253_2	2.32\|1081993\|33\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1081993-1082025	33	MT422786	Bacillus phage Novomoskovsk, complete genome	7938-7970	9	0.727
NC_009253_2	2.49\|1083128\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1083128-1083161	34	KT997846	Uncultured Mediterranean phage uvDeep1-CGR2-KM23-C896, complete genome	29092-29125	9	0.735
NC_009253_2	2.7\|1080331\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080331-1080364	34	NZ_LR134433	Legionella adelaidensis strain NCTC12735 genome assembly, plasmid: 24	172613-172646	10	0.706
NC_009253_2	2.3\|1080069\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080069-1080102	34	NZ_CP046724	Pantoea agglomerans strain ASB05 plasmid pASB05p2, complete sequence	199805-199838	11	0.676
NC_009253_2	2.3\|1080069\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080069-1080102	34	NZ_CP034471	Pantoea agglomerans strain CFSAN047153 plasmid pCFSAN047153_2, complete sequence	131682-131715	11	0.676
NC_009253_2	2.3\|1080069\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080069-1080102	34	NZ_CP034150	Pantoea agglomerans strain L15 plasmid pPagL15_2, complete sequence	174704-174737	11	0.676
NC_009253_2	2.3\|1080069\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080069-1080102	34	NZ_CP031651	Pantoea agglomerans strain TH81 plasmid unnamed2, complete sequence	99400-99433	11	0.676
NC_009253_2	2.3\|1080069\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080069-1080102	34	NZ_CP034476	Pantoea agglomerans strain CFSAN047154 plasmid pCFSAN047154_2, complete sequence	64123-64156	11	0.676
NC_009253_2	2.13\|1080725\|35\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080725-1080759	35	NZ_CP017691	Geobacillus thermodenitrificans strain ID-1 plasmid pLDW-2, complete sequence	218-252	11	0.686
NC_009253_2	2.13\|1080725\|35\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1080725-1080759	35	NZ_CP017691	Geobacillus thermodenitrificans strain ID-1 plasmid pLDW-2, complete sequence	70312-70346	11	0.686
NC_009253_2	2.48\|1083062\|34\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1083062-1083095	34	NZ_CP022517	Pantoea vagans strain FBS135 plasmid pPant1, complete sequence	141864-141897	11	0.676

1. spacer 1.21|587012|27|NC_009253|CRT matches to NZ_CP040345 (Bacillus albus strain DLOU-Yingkou plasmid unnamed1, complete sequence) position: , mismatch: 6, identity: 0.778

ctacataatatataaattatgtagcga	CRISPR spacer
atacgtaatatataaattatgttataa	Protospacer
 ***.***************** ...*

2. spacer 2.29|1081794|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MN693075 (Marine virus AFVG_25M503, complete genome) position: , mismatch: 6, identity: 0.824

attttgttcttttgttgtaatctcctgtactttt	CRISPR spacer
attttgttcttttgttttaatctcattttgcttt	Protospacer
**************** ******* * *  .***

3. spacer 2.41|1082593|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MF403008 (Agrobacterium phage Atu_ph07, complete genome) position: , mismatch: 6, identity: 0.818

atattcggtttgatctagttctgttgctatgtc	CRISPR spacer
atcttcggtttgatctagttctctttttgtttc	Protospacer
** ******************* ** .*.* **

4. spacer 2.50|1083194|32|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to KP282673 (Acidianus bottle-shaped virus 2 strain ABV2, complete genome) position: , mismatch: 6, identity: 0.812

tgattactattatcaacgagtaaaaaatttac	CRISPR spacer
tcattattattatcaacgagtaaaaattaaaa	Protospacer
* ****.******************* *  *

5. spacer 1.12|587145|35|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP022118 (Salmonella enterica subsp. enterica serovar Macclesfield str. S-1643 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.8

caaaagataaaaataatag---tatcatttaatcaggg	CRISPR spacer
ctaaagataaaaataatagttttattttttagtca---	Protospacer
* *****************   ***. ****.***

6. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NC_019507 (Campylobacter phage CP21, complete genome) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact--	CRISPR spacer
tatctatagaattttta--attttttcataattat	Protospacer
*****************  ** **.*. ***.*

7. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MT932329 (Campylobacter phage F379, complete genome) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact--	CRISPR spacer
tatctatagaattttta--attttttcataattat	Protospacer
*****************  ** **.*. ***.*

8. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to HE815464 (Campylobacter phage CP21 complete sequence) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact--	CRISPR spacer
tatctatagaattttta--attttttcataattat	Protospacer
*****************  ** **.*. ***.*

9. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MK408758 (Campylobacter phage CP20, complete genome) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact--	CRISPR spacer
tatctatagaattttta--attttttcataattat	Protospacer
*****************  ** **.*. ***.*

10. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to FN667789 (Campylobacter phage CPt10, complete genome) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact--	CRISPR spacer
tatctatagaattttta--attttttcataattat	Protospacer
*****************  ** **.*. ***.*

11. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP040048 (Acinetobacter baumannii strain VB1190 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.788

tatctatagaatttttaatatgttcttttaact	CRISPR spacer
tttcacaagaatttataatatcttcttttaatt	Protospacer
* **   ******* ****** *********.*

12. spacer 2.41|1082593|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MK295204 (Shigella phage vB_SdyM_006, complete genome) position: , mismatch: 7, identity: 0.788

atattcggtttgatctagttctgttgctatgtc	CRISPR spacer
tttttctgtttgatctagttttgttgcattttc	Protospacer
 * *** *************.******  * **

13. spacer 2.41|1082593|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MG696114 (Proteus phage phiP4-3, complete genome) position: , mismatch: 7, identity: 0.788

atattcggtttgatctagttctgttgctatgtc	CRISPR spacer
tttttctgtttgatctagttttgttgcattttc	Protospacer
 * *** *************.******  * **

14. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MN692960 (Marine virus AFVG_117M7, complete genome) position: , mismatch: 8, identity: 0.758

tatctatagaatttttaatatgttcttttaact	CRISPR spacer
ttgtaacagaatttttaatatgttgttctaaca	Protospacer
*  . *.***************** **.****

15. spacer 2.6|1080266|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NC_014633 (Ilyobacter polytropus DSM 2926 plasmid pILYOP01, complete sequence) position: , mismatch: 8, identity: 0.758

tatctatagaatttttaatatgttcttttaact	CRISPR spacer
tggctttagaatttttaatatattcttctgaaa	Protospacer
*. ** ***************.*****.*.*

16. spacer 2.7|1080331|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MN693120 (Marine virus AFVG_25M98, complete genome) position: , mismatch: 8, identity: 0.765

atttagtaaaccattttcaagaatatataaagca	CRISPR spacer
atttggtaaaccatcttcaagaattcttagaacc	Protospacer
****.*********.********* . **.*.*

17. spacer 2.50|1083194|32|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NC_010470 (Leuconostoc citreum KM20 plasmid pLCK1, complete sequence) position: , mismatch: 8, identity: 0.75

tgattactattatcaacgagtaaaaaatttac	CRISPR spacer
ggaccttttttataaacaagtaaaaaatttac	Protospacer
 **.. .* **** ***.**************

18. spacer 2.50|1083194|32|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to JQ340088 (Halocynthia phage JM-2012, complete genome) position: , mismatch: 8, identity: 0.75

tgattactattatcaacgagtaaaaaatttac	CRISPR spacer
cgagtactattatcaatgagtaaattaattga	Protospacer
.** ************.*******  * **.

19. spacer 3.1|1086763|33|NC_009253|CRISPRCasFinder matches to NZ_CP017077 (Novosphingobium resinovorum strain SA1 plasmid pSA2, complete sequence) position: , mismatch: 8, identity: 0.758

agctttggacactcctataccaacaccttctgg	CRISPR spacer
agctttggacattcctgtaccaacagcgttcca	Protospacer
***********.****.******** * *.. .

20. spacer 2.32|1081993|33|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to MT422786 (Bacillus phage Novomoskovsk, complete genome) position: , mismatch: 9, identity: 0.727

atctaaaagtgattgttactatattttatctgc	CRISPR spacer
agctaaaagtgattgtcattatattttgcgctt	Protospacer
* **************.*.********.. . .

21. spacer 2.49|1083128|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to KT997846 (Uncultured Mediterranean phage uvDeep1-CGR2-KM23-C896, complete genome) position: , mismatch: 9, identity: 0.735

---cctagactgcaatactatacataccacttgacag	CRISPR spacer
atgttta---tacaatactatacattccacatgacat	Protospacer
   ..**   *.************* **** *****

22. spacer 2.7|1080331|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LR134433 (Legionella adelaidensis strain NCTC12735 genome assembly, plasmid: 24) position: , mismatch: 10, identity: 0.706

atttagtaaaccattttcaagaatatataaagca	CRISPR spacer
ttcccaaaaatcattttcaagaatatgtaaaccg	Protospacer
 *.. . ***.***************.**** *.

23. spacer 2.3|1080069|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046724 (Pantoea agglomerans strain ASB05 plasmid pASB05p2, complete sequence) position: , mismatch: 11, identity: 0.676

accgcctcattgtcagtggttattatgcaatgta	CRISPR spacer
gccgccgcattgtcagtcgttattaacctgctcg	Protospacer
.***** ********** *******  * .. ..

24. spacer 2.3|1080069|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP034471 (Pantoea agglomerans strain CFSAN047153 plasmid pCFSAN047153_2, complete sequence) position: , mismatch: 11, identity: 0.676

accgcctcattgtcagtggttattatgcaatgta	CRISPR spacer
gccgccgcattgtcagtcgttattaacctgctcg	Protospacer
.***** ********** *******  * .. ..

25. spacer 2.3|1080069|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP034150 (Pantoea agglomerans strain L15 plasmid pPagL15_2, complete sequence) position: , mismatch: 11, identity: 0.676

accgcctcattgtcagtggttattatgcaatgta	CRISPR spacer
gccgccgcattgtcagtcgttattaacctgctcg	Protospacer
.***** ********** *******  * .. ..

26. spacer 2.3|1080069|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP031651 (Pantoea agglomerans strain TH81 plasmid unnamed2, complete sequence) position: , mismatch: 11, identity: 0.676

accgcctcattgtcagtggttattatgcaatgta	CRISPR spacer
gccgccgcattgtcagtcgttattaacctgctcg	Protospacer
.***** ********** *******  * .. ..

27. spacer 2.3|1080069|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP034476 (Pantoea agglomerans strain CFSAN047154 plasmid pCFSAN047154_2, complete sequence) position: , mismatch: 11, identity: 0.676

accgcctcattgtcagtggttattatgcaatgta	CRISPR spacer
gccgccgcattgtcagtcgttattaacctgctcg	Protospacer
.***** ********** *******  * .. ..

28. spacer 2.13|1080725|35|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017691 (Geobacillus thermodenitrificans strain ID-1 plasmid pLDW-2, complete sequence) position: , mismatch: 11, identity: 0.686

tgcggcaagaagtgccttttcaactgcattatcaa	CRISPR spacer
aaactcaaaaaatgccttttcaactgcattttttg	Protospacer
 .   ***.**.****************** *. .

29. spacer 2.13|1080725|35|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017691 (Geobacillus thermodenitrificans strain ID-1 plasmid pLDW-2, complete sequence) position: , mismatch: 11, identity: 0.686

tgcggcaagaagtgccttttcaactgcattatcaa	CRISPR spacer
aaactcaaaaaatgccttttcaactgcattttttg	Protospacer
 .   ***.**.****************** *. .

30. spacer 2.48|1083062|34|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP022517 (Pantoea vagans strain FBS135 plasmid pPant1, complete sequence) position: , mismatch: 11, identity: 0.676

actataacagataacagtcataacctacataaca	CRISPR spacer
gcctaaacagatcacagtcattacctacaccgtc	Protospacer
.*.  ******* ******** *******. ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

256397 : 321588

Paramecium_bursaria_Chlorella_virus(25.0%)

transposase,tRNA

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_011876642.1\|256397_257141_+\|tRNA	tRNA pseudouridine(38-40) synthase TruA	NA	NA	NA	NA
WP_011876643.1\|257407_257839_+	50S ribosomal protein L13	NA	NA	NA	NA
WP_011876644.1\|257872_258265_+	30S ribosomal protein S9	NA	NA	NA	NA
WP_011876645.1\|258606_260388_+	AAA domain-containing protein	NA	NA	NA	NA
WP_011876646.1\|260640_261843_+	diaminopropionate ammonia-lyase	NA	NA	NA	NA
WP_011876647.1\|261877_263062_+	YgeY family selenium metabolism-linked hydrolase	NA	NA	NA	NA
WP_011876648.1\|263092_264517_+	dihydropyrimidinase	NA	NA	NA	NA
WP_011876649.1\|264546_265953_+	cytosine/purines uracil thiamine allantoin permease	NA	NA	NA	NA
WP_011876650.1\|266017_267619_+	D-aminoacylase	NA	NA	NA	NA
WP_011876651.1\|267683_268052_+	RidA family protein	NA	NA	NA	NA
WP_156779704.1\|268332_269061_+	cell wall hydrolase	A0A2H4JCM7	uncultured_Caudovirales_phage	6.2e-26	33.2
WP_011876653.1\|269208_270375_+	aminotransferase class V-fold PLP-dependent enzyme	NA	NA	NA	NA
WP_011876656.1\|271655_273059_+	AmmeMemoRadiSam system protein A	NA	NA	NA	NA
WP_011876657.1\|273098_273959_+	AmmeMemoRadiSam system radical SAM enzyme	NA	NA	NA	NA
WP_011876658.1\|274299_275340_+	N-acetyl-gamma-glutamyl-phosphate reductase	NA	NA	NA	NA
WP_011876659.1\|275351_276569_+	bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ	NA	NA	NA	NA
WP_011876660.1\|276637_277501_+	acetylglutamate kinase	NA	NA	NA	NA
WP_011876661.1\|277514_278705_+	acetylornithine transaminase	A0A1V0SKB7	Klosneuvirus	9.8e-29	28.7
WP_011876662.1\|278716_281941_+	carbamoyl-phosphate synthase large subunit	NA	NA	NA	NA
WP_011876663.1\|282035_282983_+	ornithine carbamoyltransferase	A7RB08	Paramecium_bursaria_Chlorella_virus	7.9e-21	29.1
WP_011876664.1\|283234_284440_+	argininosuccinate synthase	NA	NA	NA	NA
WP_011876665.1\|284574_285957_+	argininosuccinate lyase	NA	NA	NA	NA
WP_011876666.1\|286096_287188_+	HD domain-containing protein	NA	NA	NA	NA
WP_041274369.1\|287927_289589_+	dihydroxy-acid dehydratase	NA	NA	NA	NA
WP_041274370.1\|289677_291339_+	biosynthetic-type acetolactate synthase large subunit	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	3.5e-64	30.0
WP_011876669.1\|291354_291867_+	acetolactate synthase small subunit	NA	NA	NA	NA
WP_011876670.1\|291869_292862_+	ketol-acid reductoisomerase	NA	NA	NA	NA
WP_011876671.1\|293057_294725_+	biosynthetic-type acetolactate synthase large subunit	NA	NA	NA	NA
WP_011876672.1\|294749_296267_+	2-isopropylmalate synthase	E5EQ69	Micromonas_sp._RCC1109_virus	9.7e-05	30.9
WP_041274371.1\|296290_297553_+	3-isopropylmalate dehydratase large subunit	NA	NA	NA	NA
WP_011876674.1\|297553_298054_+	3-isopropylmalate dehydratase small subunit	NA	NA	NA	NA
WP_011876675.1\|298046_299117_+	3-isopropylmalate dehydrogenase	NA	NA	NA	NA
WP_011876676.1\|299269_300811_+	citramalate synthase	NA	NA	NA	NA
WP_011876677.1\|300963_302193_-	DUF4127 family protein	NA	NA	NA	NA
WP_011876678.1\|302578_303820_-\|transposase	IS4-like element ISDre1 family transposase	NA	NA	NA	NA
WP_156779551.1\|303981_304119_+	hypothetical protein	NA	NA	NA	NA
WP_011876679.1\|304237_305062_+	TIGR00159 family protein	NA	NA	NA	NA
WP_011876680.1\|305058_306063_+	hypothetical protein	NA	NA	NA	NA
WP_011876681.1\|306234_307569_+	phosphoglucosamine mutase	NA	NA	NA	NA
WP_011876682.1\|307918_309748_+	glutamine--fructose-6-phosphate transaminase (isomerizing)	M1H1Z3	Paramecium_bursaria_Chlorella_virus	3.2e-119	42.3
WP_011876683.1\|309967_311422_+\|transposase	IS1380-like element ISDre2 family transposase	NA	NA	NA	NA
WP_041274372.1\|312013_312868_+	hypothetical protein	NA	NA	NA	NA
WP_041274373.1\|312969_314625_+	DNA mismatch repair enzyme (ATPase)	NA	NA	NA	NA
WP_156779552.1\|314760_314922_+	hypothetical protein	NA	NA	NA	NA
WP_011876686.1\|314990_315770_-	ATPase AAA	A0A2L1IVB6	Escherichia_phage	3.2e-28	31.1
WP_011876687.1\|315766_317356_-\|transposase	IS21 family transposase	NA	NA	NA	NA
WP_011876688.1\|317711_318155_+\|transposase	transposase	NA	NA	NA	NA
WP_041274374.1\|318206_318950_-	ATP-binding protein	NA	NA	NA	NA
WP_011876690.1\|318942_320502_-\|transposase	IS21 family transposase	A0A2L1IVA1	Escherichia_phage	1.1e-06	27.4
WP_156779553.1\|320638_320776_+	hypothetical protein	NA	NA	NA	NA
WP_011876692.1\|320772_321588_+\|transposase	IS3 family transposase	NA	NA	NA	NA

DBSCAN-SWA_2

350739 : 357142

Caulobacter_phage(50.0%)

protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011876722.1\|350739_351312_+	TerD family protein	K4JRX3	Caulobacter_phage	2.5e-22	34.1
WP_011876723.1\|351328_351931_+	TerD family protein	K4JRX3	Caulobacter_phage	1.7e-24	32.8
WP_011876724.1\|351960_352539_+	TerD family protein	K4JRX3	Caulobacter_phage	7.6e-27	38.4
WP_083755202.1\|352797_353484_+	TerC family protein	S5MAL1	Bacillus_phage	8.1e-60	54.5
WP_041274380.1\|353480_354668_+	HpcH/HpaI aldolase/citrate lyase family protein	NA	NA	NA	NA
WP_156779705.1\|354660_355983_+	hypothetical protein	A0A172Q0Y1	Acinetobacter_phage	3.7e-16	29.8
WP_049755920.1\|355945_357142_+\|protease	cysteine protease StiP family protein	A0A172Q0S8	Acinetobacter_phage	1.3e-41	33.1

DBSCAN-SWA_3

809587 : 818774

Bacillus_phage(25.0%)

protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011877131.1\|809587_811390_+\|tRNA	aspartate--tRNA ligase	A0A1V0SIS0	Klosneuvirus	2.4e-10	27.9
WP_011877132.1\|811973_813101_+\|protease	trypsin-like serine protease	A0A1B1IT49	uncultured_Mediterranean_phage	3.8e-22	26.4
WP_011877133.1\|813141_813813_+	response regulator transcription factor	W8CYM9	Bacillus_phage	1.4e-40	38.8
WP_011877134.1\|813812_815237_+	HAMP domain-containing histidine kinase	W8CYF6	Bacillus_phage	1.1e-26	28.6
WP_041274777.1\|815283_815994_+\|tRNA	tRNA threonylcarbamoyladenosine dehydratase	S4VW33	Pandoravirus	9.1e-22	36.9
WP_011877136.1\|816097_816424_+	thioredoxin	A0A1X9I9P5	Staphylococcus_phage	5.1e-20	50.6
WP_011877137.1\|816651_817101_+	Rrf2 family transcriptional regulator	NA	NA	NA	NA
WP_011877138.1\|817124_818369_+	cysteine desulfurase NifS	H7BUW1	unidentified_phage	4.8e-42	40.6
WP_011877139.1\|818402_818774_+	Fe-S cluster assembly scaffold protein NifU	A0A2H4N7M4	Lake_Baikal_phage	3.3e-31	56.1

DBSCAN-SWA_4

906144 : 934254

Pandoravirus(33.33%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011876735.1\|906144_907428_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_156779556.1\|907442_907586_-	hypothetical protein	NA	NA	NA	NA
WP_041274454.1\|907820_908045_+	hypothetical protein	NA	NA	NA	NA
WP_011877223.1\|908279_909197_+	hypothetical protein	NA	NA	NA	NA
WP_156779718.1\|909528_910341_+	M48 family peptidase	NA	NA	NA	NA
WP_011877225.1\|910654_911386_+	hypothetical protein	NA	NA	NA	NA
WP_011877226.1\|911440_912187_+	hypothetical protein	NA	NA	NA	NA
WP_011877227.1\|912200_912716_+	hypothetical protein	NA	NA	NA	NA
WP_011876735.1\|913000_914284_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_156779556.1\|914298_914442_-	hypothetical protein	NA	NA	NA	NA
WP_156779589.1\|914676_914823_+	hypothetical protein	NA	NA	NA	NA
WP_011877228.1\|914826_915492_+	hypothetical protein	NA	NA	NA	NA
WP_011877229.1\|916275_916683_+	hypothetical protein	NA	NA	NA	NA
WP_011877231.1\|917199_918441_-\|transposase	IS4-like element ISDre1 family transposase	NA	NA	NA	NA
WP_011877233.1\|919364_920264_+	site-specific DNA-methyltransferase	S4VZJ3	Pandoravirus	9.5e-93	56.5
WP_041274456.1\|920226_921225_+	XcyI family restriction endonuclease	NA	NA	NA	NA
WP_011877235.1\|921259_922564_+\|transposase	ISL3 family transposase	A0A2D1GQC1	Lysinibacillus_phage	3.5e-104	43.4
WP_011877236.1\|923546_926141_-	DEAD/DEAH box helicase family protein	NA	NA	NA	NA
WP_011877237.1\|926153_927671_-	site-specific DNA-methyltransferase	B3RH19	Escherichia_phage	5.8e-58	35.7
WP_011877238.1\|927852_929628_-	AAA family ATPase	NA	NA	NA	NA
WP_011877239.1\|929835_930657_-	NERD domain-containing protein	NA	NA	NA	NA
WP_011877240.1\|931090_932332_-\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_011876859.1\|932799_934254_+\|transposase	IS1380-like element ISDre2 family transposase	NA	NA	NA	NA

DBSCAN-SWA_5

1255343 : 1305344

Vibrio_phage(19.51%)

portal,tail,integrase,protease,plate,capsid,head,terminase

attL 1258534:1258582|attR 1308184:1308232

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011877540.1\|1255343_1256138_+	exodeoxyribonuclease III	A0A0N9QXX6	Chrysochromulina_ericina_virus	1.4e-18	30.4
WP_011877541.1\|1256452_1258318_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	1.7e-14	44.7
1258534:1258582	attL	NA	NA	NA	NA
WP_011877542.1\|1258678_1259809_-\|integrase	site-specific integrase	A0A0K2CZ62	Paenibacillus_phage	1.0e-22	26.7
WP_156779610.1\|1259809_1259974_-	hypothetical protein	NA	NA	NA	NA
WP_011877543.1\|1259976_1260609_-	helix-turn-helix domain-containing protein	E5DV74	Deep-sea_thermophilic_phage	6.2e-30	45.5
WP_011877544.1\|1260783_1261038_+	helix-turn-helix transcriptional regulator	A0A0S2MVA3	Bacillus_phage	3.0e-12	50.7
WP_156779611.1\|1261066_1261243_-	hypothetical protein	NA	NA	NA	NA
WP_011877545.1\|1261448_1261799_+	hypothetical protein	A0A097BY30	Enterococcus_phage	4.2e-12	45.1
WP_041274834.1\|1261854_1262541_+	hypothetical protein	A0A0K2CZT8	Paenibacillus_phage	1.3e-46	42.3
WP_011877547.1\|1262626_1263142_+	hypothetical protein	S5M5X1	Brevibacillus_phage	1.3e-06	30.2
WP_011877548.1\|1263141_1264335_+	DUF2800 domain-containing protein	S5MUB5	Brevibacillus_phage	1.9e-133	61.9
WP_011877549.1\|1264446_1265004_+	DUF2815 family protein	S5MC21	Brevibacillus_phage	8.3e-71	68.5
WP_011877550.1\|1265067_1265328_+	hypothetical protein	NA	NA	NA	NA
WP_156779612.1\|1265339_1265477_+	hypothetical protein	NA	NA	NA	NA
WP_011877551.1\|1265473_1267426_+	DNA polymerase	S5M5X4	Brevibacillus_phage	1.5e-244	66.3
WP_011877552.1\|1267467_1268838_+	helicase	F4YCV3	Synechococcus_phage	6.7e-138	54.9
WP_011877553.1\|1268827_1269820_+	DNA methylase	F4YCV3	Synechococcus_phage	1.3e-106	59.7
WP_041274502.1\|1269816_1270272_+	DUF4406 domain-containing protein	NA	NA	NA	NA
WP_041274503.1\|1270355_1270709_+	hypothetical protein	NA	NA	NA	NA
WP_049755861.1\|1270725_1271043_+	hypothetical protein	NA	NA	NA	NA
WP_011877555.1\|1270927_1271914_+	hypothetical protein	NA	NA	NA	NA
WP_011877556.1\|1272082_1274539_+	virulence-associated E family protein	A0A1S7FZ15	Listeria_phage	3.3e-244	52.2
WP_041274504.1\|1274938_1275148_+	hypothetical protein	NA	NA	NA	NA
WP_011877557.1\|1275144_1275426_+	VRR-NUC domain-containing protein	A0A2K5B272	Erysipelothrix_phage	1.4e-21	57.6
WP_011877558.1\|1275422_1276787_+	DEAD/DEAH box helicase	S5MA26	Brevibacillus_phage	1.4e-172	64.7
WP_041274505.1\|1276805_1276985_+	hypothetical protein	NA	NA	NA	NA
WP_011877559.1\|1276988_1277468_+	hypothetical protein	NA	NA	NA	NA
WP_041274506.1\|1277442_1278120_+	FAD-dependent thymidylate synthase	A0A125SJ60	Acidianus_tailed_spindle_virus	1.2e-23	30.8
WP_049755865.1\|1278312_1278855_+	hypothetical protein	I2E8Y5	Clostridium_phage	5.7e-24	38.6
WP_011877562.1\|1279244_1279796_+	hypothetical protein	A0A0C5AN04	Bacteriophage	1.3e-23	43.8
WP_156779727.1\|1279800_1281621_+\|terminase	phage terminase large subunit family protein	A0A2K9V3X4	Faecalibacterium_phage	1.3e-181	53.5
WP_041274507.1\|1281639_1281873_+	hypothetical protein	NA	NA	NA	NA
WP_011877564.1\|1281891_1283487_+\|portal	phage portal protein	A0A0C5AJ48	Bacteriophage	5.5e-152	54.2
WP_083755144.1\|1283479_1284691_+\|protease	Clp protease ClpP	A6M950	Geobacillus_virus	8.7e-73	59.6
WP_011877566.1\|1284690_1285068_+\|head	head decoration protein	A0A0C5AN05	Bacteriophage	3.3e-15	45.1
WP_041274508.1\|1285105_1286149_+\|capsid	phage capsid protein	A0A0C5ABI0	Bacteriophage	2.0e-73	42.1
WP_041274509.1\|1286161_1286398_+	hypothetical protein	NA	NA	NA	NA
WP_011877568.1\|1286397_1286706_+	hypothetical protein	A0A067ZJA6	Vibrio_phage	2.9e-17	43.4
WP_011877569.1\|1286702_1287260_+	hypothetical protein	A0A067ZG41	Vibrio_phage	1.1e-27	46.9
WP_011877570.1\|1287256_1287727_+	hypothetical protein	NA	NA	NA	NA
WP_011877571.1\|1287716_1288031_+	hypothetical protein	NA	NA	NA	NA
WP_011877572.1\|1288030_1289488_+\|tail	phage tail sheath family protein	A0A059WKP9	Vibrio_phage	7.3e-167	57.8
WP_156779613.1\|1289500_1290031_+\|tail	phage tail protein	A0A067ZJA9	Vibrio_phage	4.4e-37	48.0
WP_011877574.1\|1290087_1290414_+	hypothetical protein	A0A0C5AEP1	Bacteriophage	5.8e-16	51.2
WP_011877575.1\|1290526_1293619_+\|tail	phage tail tape measure protein	A0A0K1Y5T7	Streptomyces_phage	1.6e-30	38.9
WP_041274511.1\|1293608_1293824_+	hypothetical protein	A0A2K9V482	Faecalibacterium_phage	1.4e-10	44.3
WP_011877576.1\|1293820_1294840_+	phage late control D family protein	A0A067ZG47	Vibrio_phage	4.0e-55	36.0
WP_011877577.1\|1294840_1295320_+\|plate	phage baseplate assembly protein V	NA	NA	NA	NA
WP_011877578.1\|1295323_1295713_+\|tail	phage tail protein	A0A0C5AN08	Bacteriophage	1.5e-31	48.8
WP_011877579.1\|1295728_1296043_+	GPW/gp25 family protein	A0A067ZJ13	Vibrio_phage	5.2e-14	46.9
WP_011877580.1\|1296029_1297154_+\|plate	baseplate J/gp47 family protein	A0A059WFM2	Vibrio_phage	1.3e-94	50.1
WP_011877581.1\|1297146_1299096_+	hypothetical protein	A0A0C5AJ63	Bacteriophage	2.7e-31	45.3
WP_011877582.1\|1299114_1299573_+	hypothetical protein	NA	NA	NA	NA
WP_011877583.1\|1299596_1300034_+	hypothetical protein	R9TNJ7	Vibrio_phage	1.7e-07	50.0
WP_011877584.1\|1300075_1300444_+	hypothetical protein	NA	NA	NA	NA
WP_011877585.1\|1300444_1301947_+	hypothetical protein	A0A2H4J4Y6	uncultured_Caudovirales_phage	5.4e-16	32.6
WP_011877586.1\|1302072_1302375_+	diversity-generating retroelement protein Avd	A0A0N7ACE0	Bacillus_phage	7.2e-29	61.6
WP_011877587.1\|1302698_1303727_+	RNA-directed DNA polymerase	A0A0N7AE80	Bacillus_phage	4.0e-95	49.0
WP_041274513.1\|1303758_1304022_+	hypothetical protein	NA	NA	NA	NA
WP_011877588.1\|1304027_1305344_+	cell wall hydrolase/autolysin	G3MB92	Bacillus_virus	3.3e-70	31.8
1308184:1308232	attR	NA	NA	NA	NA

DBSCAN-SWA_6

1941191 : 2003428

Ostreococcus_lucimarinus_virus(14.29%)

protease,integrase,transposase

attL 1952240:1952255|attR 1998081:1998096

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011876820.1\|1941191_1942646_-\|transposase	IS1380-like element ISDre3 family transposase	NA	NA	NA	NA
WP_041274562.1\|1943156_1945244_+	PAS domain S-box protein	NA	NA	NA	NA
WP_011878115.1\|1945705_1947742_+	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_011878116.1\|1948295_1949063_+	electron transfer flavoprotein subunit beta/FixA family protein	NA	NA	NA	NA
WP_011878117.1\|1949077_1950055_+	electron transfer flavoprotein subunit alpha/FixB family protein	NA	NA	NA	NA
WP_156779632.1\|1950118_1950292_+	Com family DNA-binding transcriptional regulator	NA	NA	NA	NA
WP_011878118.1\|1950489_1951344_+	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA
WP_011878119.1\|1951360_1952143_+	short-chain-enoyl-CoA hydratase	NA	NA	NA	NA
WP_011878120.1\|1952228_1953368_+	acyl-CoA dehydrogenase	NA	NA	NA	NA
1952240:1952255	attL	NA	NA	NA	NA
WP_011878121.1\|1953784_1954945_+	(Fe-S)-binding protein	NA	NA	NA	NA
WP_011878122.1\|1955298_1956483_+	acetyl-CoA C-acetyltransferase	NA	NA	NA	NA
WP_011878123.1\|1956775_1958116_+	4-hydroxybutyrate CoA-transferase	NA	NA	NA	NA
WP_011878124.1\|1958267_1958885_+	hypothetical protein	NA	NA	NA	NA
WP_011878125.1\|1959689_1960676_+	DUF2520 domain-containing protein	NA	NA	NA	NA
WP_011878126.1\|1960572_1961406_+	3-methyl-2-oxobutanoate hydroxymethyltransferase	A0A0N7HVJ8	Ostreococcus_lucimarinus_virus	4.4e-52	39.0
WP_011878127.1\|1961497_1962343_+	pantoate--beta-alanine ligase	NA	NA	NA	NA
WP_011878128.1\|1962347_1962731_+	aspartate 1-decarboxylase	NA	NA	NA	NA
WP_083755155.1\|1962672_1963647_+	type III pantothenate kinase	NA	NA	NA	NA
WP_156779633.1\|1963695_1963860_-	hypothetical protein	NA	NA	NA	NA
WP_011878130.1\|1963919_1964135_-	small acid-soluble spore protein Tlp	NA	NA	NA	NA
WP_156779634.1\|1964886_1965498_+	MFS transporter	NA	NA	NA	NA
WP_011878132.1\|1965580_1966969_-	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_011877240.1\|1967366_1968608_+\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_011878133.1\|1968986_1969925_+	D-alanine--D-alanine ligase	NA	NA	NA	NA
WP_041274563.1\|1970223_1970418_+	hypothetical protein	NA	NA	NA	NA
WP_011878134.1\|1970447_1973246_+	UPF0182 family protein	NA	NA	NA	NA
WP_011878135.1\|1973352_1974429_+	ATP-dependent 6-phosphofructokinase	NA	NA	NA	NA
WP_011878136.1\|1974454_1974727_+	late competence development ComFB family protein	NA	NA	NA	NA
WP_011878137.1\|1974802_1975975_+	glycosyltransferase family 4 protein	NA	NA	NA	NA
WP_011878138.1\|1975993_1976623_-	hypothetical protein	NA	NA	NA	NA
WP_011878139.1\|1976770_1977058_+	hypothetical protein	NA	NA	NA	NA
WP_011878140.1\|1977415_1979542_+	PBP1A family penicillin-binding protein	NA	NA	NA	NA
WP_011878141.1\|1979622_1980060_+	GatB/YqeY domain-containing protein	A0A292GL36	Xanthomonas_phage	2.1e-08	39.6
WP_011878142.1\|1980167_1980494_-	hypothetical protein	NA	NA	NA	NA
WP_011878143.1\|1980646_1980895_+	YgiT-type zinc finger protein	NA	NA	NA	NA
WP_011878144.1\|1981044_1981842_-	iron export ABC transporter permease subunit FetB	NA	NA	NA	NA
WP_011878145.1\|1981851_1982493_-	ATP-binding cassette domain-containing protein	G9BWD6	Planktothrix_phage	2.2e-11	28.4
WP_011878146.1\|1982837_1983203_+	hypothetical protein	NA	NA	NA	NA
WP_156779746.1\|1983199_1984462_-	hexokinase	NA	NA	NA	NA
WP_011878148.1\|1984803_1985064_+	hypothetical protein	NA	NA	NA	NA
WP_011878149.1\|1985129_1986686_+	ABC-F family ATP-binding cassette domain-containing protein	A0A1V0SKJ1	Klosneuvirus	4.0e-54	31.0
WP_156779747.1\|1986748_1987240_-	CBS domain-containing protein	NA	NA	NA	NA
WP_011878151.1\|1987688_1989608_+	ABC-F family ATP-binding cassette domain-containing protein	A0A2K9L3Z8	Tupanvirus	3.3e-50	28.9
WP_011878152.1\|1989792_1991268_+	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_156779635.1\|1991279_1991453_-	hypothetical protein	NA	NA	NA	NA
WP_011878153.1\|1991633_1993313_+	ribonuclease J	NA	NA	NA	NA
WP_011878154.1\|1993602_1995378_+	DUF262 domain-containing protein	NA	NA	NA	NA
WP_156779748.1\|1995476_1996277_+\|protease	site-2 protease family protein	NA	NA	NA	NA
WP_011878156.1\|1996327_1996801_+	HD domain-containing protein	NA	NA	NA	NA
WP_011878157.1\|1997193_1998045_+\|integrase	tyrosine-type recombinase/integrase	A0A0E3M2X0	Bacillus_phage	1.5e-07	23.7
WP_041274566.1\|2001058_2001322_+	hypothetical protein	NA	NA	NA	NA
1998081:1998096	attR	NA	NA	NA	NA
WP_011878160.1\|2001318_2001693_+\|protease	clan AA aspartic protease	NA	NA	NA	NA
WP_011878161.1\|2002216_2003428_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	9.6e-56	55.3

DBSCAN-SWA_7

2119503 : 2175708

Bacillus_virus(37.5%)

protease,coat,transposase,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011876859.1\|2119503_2120958_-\|transposase	IS1380-like element ISDre2 family transposase	NA	NA	NA	NA
WP_041274915.1\|2121223_2121409_+	hypothetical protein	NA	NA	NA	NA
WP_011878262.1\|2121920_2122676_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011878263.1\|2122620_2123748_-\|tRNA	tRNA 2-selenouridine(34) synthase MnmH	NA	NA	NA	NA
WP_011878264.1\|2123965_2126248_-	DNA translocase FtsK	S5VNE3	Mycobacterium_phage	3.3e-89	51.4
WP_041274578.1\|2126406_2126619_+\|coat	spore coat protein	NA	NA	NA	NA
WP_011878265.1\|2126636_2127083_+\|coat	spore coat protein	NA	NA	NA	NA
WP_041274579.1\|2127336_2127546_-	hypothetical protein	NA	NA	NA	NA
WP_041274916.1\|2127542_2128367_-	translocation-enhancing protein TepA	NA	NA	NA	NA
WP_011878267.1\|2128625_2130290_-	ribonuclease J	NA	NA	NA	NA
WP_011878268.1\|2130523_2131414_-	4-hydroxy-tetrahydrodipicolinate synthase	NA	NA	NA	NA
WP_011878269.1\|2131439_2132666_-	aspartate kinase	NA	NA	NA	NA
WP_011878270.1\|2132668_2133691_-	aspartate-semialdehyde dehydrogenase	NA	NA	NA	NA
WP_011878271.1\|2133740_2134325_-	dipicolinate synthase subunit B	NA	NA	NA	NA
WP_011878272.1\|2134348_2135251_-	dipicolinate synthase subunit DpsA	NA	NA	NA	NA
WP_011878273.1\|2135360_2136158_-	4-hydroxy-tetrahydrodipicolinate reductase	NA	NA	NA	NA
WP_011878274.1\|2136371_2136641_-	YlmC/YmxH family sporulation protein	NA	NA	NA	NA
WP_041274580.1\|2136653_2136995_-	hypothetical protein	NA	NA	NA	NA
WP_011878276.1\|2137101_2138370_-	insulinase family protein	G3MBJ8	Bacillus_virus	3.3e-59	33.1
WP_011878277.1\|2138498_2139248_-	polysaccharide deacetylase family protein	NA	NA	NA	NA
WP_011878278.1\|2139378_2140053_-	spore cortex-lytic enzyme	A0A172JHR8	Bacillus_phage	1.2e-20	35.7
WP_011878279.1\|2140298_2142521_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA
WP_011878280.1\|2142669_2142939_-	30S ribosomal protein S15	NA	NA	NA	NA
WP_041274581.1\|2143027_2143249_-	hypothetical protein	NA	NA	NA	NA
WP_041274582.1\|2143261_2143492_-	hypothetical protein	NA	NA	NA	NA
WP_011878281.1\|2143614_2144550_-	bifunctional riboflavin kinase/FAD synthetase	NA	NA	NA	NA
WP_011878282.1\|2144640_2145573_-\|tRNA	tRNA pseudouridine(55) synthase TruB	NA	NA	NA	NA
WP_011878283.1\|2145574_2146546_-	bifunctional oligoribonuclease/PAP phosphatase NrnA	G3MA01	Bacillus_virus	6.8e-36	34.0
WP_011878284.1\|2146538_2146901_-	30S ribosome-binding factor RbfA	NA	NA	NA	NA
WP_011878285.1\|2146931_2149889_-	translation initiation factor IF-2	A0A2H4UTS4	Bodo_saltans_virus	2.5e-25	27.6
WP_011878286.1\|2149925_2150237_-	50S ribosomal protein L7/L12	NA	NA	NA	NA
WP_011878287.1\|2150237_2150504_-	YlxR family protein	NA	NA	NA	NA
WP_011878288.1\|2150516_2151671_-	transcription termination/antitermination protein NusA	NA	NA	NA	NA
WP_011878289.1\|2151693_2152155_-	ribosome maturation factor RimP	NA	NA	NA	NA
WP_011878290.1\|2152496_2153528_-	hypothetical protein	NA	NA	NA	NA
WP_041274583.1\|2153687_2154641_-	polysaccharide deacetylase family protein	NA	NA	NA	NA
WP_011878292.1\|2154870_2156160_+	L,D-transpeptidase	NA	NA	NA	NA
WP_011878293.1\|2156193_2160474_-	PolC-type DNA polymerase III	U5Q053	Bacillus_virus	3.8e-14	33.3
WP_011878294.1\|2160531_2161695_-	glycosyltransferase	NA	NA	NA	NA
WP_011878295.1\|2161708_2163418_-\|tRNA	proline--tRNA ligase	NA	NA	NA	NA
WP_011878296.1\|2163482_2164532_-	flavodoxin-dependent (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase	NA	NA	NA	NA
WP_011878297.1\|2164543_2165587_-\|protease	RIP metalloprotease RseP	NA	NA	NA	NA
WP_041274584.1\|2165597_2166758_-	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA
WP_011878299.1\|2166779_2167868_-	sporulation integral membrane protein YtvI	NA	NA	NA	NA
WP_011878300.1\|2167894_2168680_-	hypothetical protein	NA	NA	NA	NA
WP_041274917.1\|2168693_2169482_-	isoprenyl transferase	R9W0U9	Flavobacterium_phage	3.8e-29	48.1
WP_041274585.1\|2169537_2169702_-	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_041274586.1\|2169691_2169907_-	hypothetical protein	NA	NA	NA	NA
WP_011878303.1\|2169908_2170463_-	ribosome recycling factor	NA	NA	NA	NA
WP_011878304.1\|2170455_2171184_-	UMP kinase	NA	NA	NA	NA
WP_011878305.1\|2171262_2171916_-	translation elongation factor Ts	NA	NA	NA	NA
WP_011878306.1\|2172042_2172741_-	30S ribosomal protein S2	NA	NA	NA	NA
WP_011878307.1\|2172944_2173730_-	GTP-sensing pleiotropic transcriptional regulator CodY	NA	NA	NA	NA
WP_011878308.1\|2173751_2175152_-\|protease	ATP-dependent protease ATPase subunit HslU	A0A191ZC11	Erwinia_phage	5.4e-42	29.5
WP_011878309.1\|2175177_2175708_-\|protease	ATP-dependent protease subunit HslV	NA	NA	NA	NA

DBSCAN-SWA_8

2587202 : 2595822

Synechococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011878671.1\|2587202_2587814_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	1.9e-31	42.5
WP_011878672.1\|2587838_2588891_-	phosphoribosylformylglycinamidine cyclo-ligase	A0A0E3FZ01	Synechococcus_phage	1.2e-67	44.6
WP_011878673.1\|2588903_2590328_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	6.4e-59	35.4
WP_011878674.1\|2590312_2592538_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	3.2e-166	42.8
WP_011878675.1\|2592537_2593239_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_011878676.1\|2593242_2593491_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_011878677.1\|2593655_2594366_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	G8EYA2	Synechococcus_phage	1.3e-39	39.1
WP_011878678.1\|2594529_2595822_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	1.8e-20	33.5

DBSCAN-SWA_9

2787452 : 2858817

Bacillus_phage(18.75%)

portal,tail,integrase,transposase,protease,plate,capsid,terminase

attL 2807658:2807674|attR 2860361:2860377

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011878868.1\|2787452_2789168_-\|protease	ATP-dependent protease LonB	NA	NA	NA	NA
WP_011878869.1\|2789455_2790706_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.5e-144	62.3
WP_011878870.1\|2790725_2791313_-	ATP-dependent Clp endopeptidase proteolytic subunit ClpP	A0A223W000	Agrobacterium_phage	5.9e-59	57.9
WP_011878871.1\|2791389_2792697_-	trigger factor	NA	NA	NA	NA
WP_156779666.1\|2793118_2793325_+	hypothetical protein	NA	NA	NA	NA
WP_011878872.1\|2794120_2794942_-	ATP-binding cassette domain-containing protein	A0A285PWH2	Cedratvirus	9.8e-12	26.3
WP_011878873.1\|2794920_2795727_-	cobalt ECF transporter T component CbiQ	NA	NA	NA	NA
WP_011878874.1\|2795748_2796045_-	membrane protein	NA	NA	NA	NA
WP_011878875.1\|2796037_2796688_-	energy-coupling factor ABC transporter permease	NA	NA	NA	NA
WP_083755221.1\|2797060_2797693_+	AzlC family ABC transporter permease	NA	NA	NA	NA
WP_041274629.1\|2797656_2797977_+	AzlD domain-containing protein	NA	NA	NA	NA
WP_011878878.1\|2798196_2801151_-	SMC family ATPase	A0A223LFJ9	Aeromonas_phage	1.0e-10	26.1
WP_011878879.1\|2801150_2802512_-	DNA repair exonuclease	NA	NA	NA	NA
WP_041274630.1\|2802683_2802983_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_011878881.1\|2803034_2803256_-	DUF378 domain-containing protein	NA	NA	NA	NA
WP_041274631.1\|2803336_2803525_-	DUF3006 domain-containing protein	NA	NA	NA	NA
WP_011878882.1\|2803521_2804580_-	MBL fold metallo-hydrolase	Q332B9	Clostridium_botulinum_C_phage	6.4e-72	51.8
WP_011878883.1\|2804764_2805124_+	DUF2680 domain-containing protein	NA	NA	NA	NA
WP_011878884.1\|2805264_2805987_-	N-acetylmuramoyl-L-alanine amidase	A0A0N6W8I1	Bacillus_phage	1.5e-16	27.6
WP_011878885.1\|2806451_2807264_-	histidinol-phosphatase	NA	NA	NA	NA
WP_011878886.1\|2807436_2807796_+	hypothetical protein	NA	NA	NA	NA
2807658:2807674	attL	NA	NA	NA	NA
WP_011878887.1\|2807994_2808378_-	hypothetical protein	NA	NA	NA	NA
WP_011878888.1\|2808746_2808932_-	hypothetical protein	NA	NA	NA	NA
WP_011878889.1\|2809292_2809508_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_041274632.1\|2809730_2810045_-	hypothetical protein	NA	NA	NA	NA
WP_011878890.1\|2810111_2810789_-	hypothetical protein	NA	NA	NA	NA
WP_011878891.1\|2810751_2811990_-	cell division protein FtsK	S5YCL4	Bacillus_phage	1.0e-12	28.5
WP_041274633.1\|2811993_2812230_-	hypothetical protein	NA	NA	NA	NA
WP_041274634.1\|2812241_2812448_-	hypothetical protein	NA	NA	NA	NA
WP_041274635.1\|2812709_2812913_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_156779667.1\|2813223_2813493_-	DUF2283 domain-containing protein	NA	NA	NA	NA
WP_011878893.1\|2813449_2813839_-	hypothetical protein	NA	NA	NA	NA
WP_011878894.1\|2813835_2814123_-	DUF3467 domain-containing protein	NA	NA	NA	NA
WP_011878895.1\|2814301_2814562_-	hypothetical protein	NA	NA	NA	NA
WP_011878896.1\|2814693_2814930_-	hypothetical protein	NA	NA	NA	NA
WP_011878897.1\|2814934_2815501_-	N-acetylmuramoyl-L-alanine amidase	A0A0N6W8I1	Bacillus_phage	3.7e-34	43.4
WP_011878898.1\|2815481_2815724_-	hypothetical protein	NA	NA	NA	NA
WP_011878899.1\|2815720_2816035_-	hypothetical protein	NA	NA	NA	NA
WP_011878900.1\|2816098_2816413_-	hypothetical protein	NA	NA	NA	NA
WP_011878901.1\|2816409_2818977_-	phage minor structural protein	A0A0N9SIL8	Paenibacillus_phage	1.3e-65	37.7
WP_041274637.1\|2819028_2819301_-	hypothetical protein	NA	NA	NA	NA
WP_041274638.1\|2819571_2819793_-	hypothetical protein	NA	NA	NA	NA
WP_011878903.1\|2819797_2821585_-	hypothetical protein	NA	NA	NA	NA
WP_011878904.1\|2821586_2822450_-	hypothetical protein	NA	NA	NA	NA
WP_041274639.1\|2822456_2822765_-\|plate	BppU family phage baseplate upper protein	A0A0U4JWX9	Bacillus_phage	3.7e-12	36.8
WP_011878905.1\|2822886_2823615_-\|tail	phage tail family protein	W8EK66	Geobacillus_phage	5.5e-14	26.5
WP_011878906.1\|2823611_2825555_-	hypothetical protein	A0A1S5SEV9	Streptococcus_phage	3.8e-22	75.8
WP_011878907.1\|2825716_2826130_-	hypothetical protein	NA	NA	NA	NA
WP_011878908.1\|2826142_2826928_-\|tail	phi13 family phage major tail protein	A0A2K5B294	Erysipelothrix_phage	1.2e-14	35.0
WP_011878909.1\|2826935_2827352_-	HK97 gp10 family phage protein	NA	NA	NA	NA
WP_041274641.1\|2827348_2827660_-	hypothetical protein	NA	NA	NA	NA
WP_011878910.1\|2827646_2828000_-	hypothetical protein	NA	NA	NA	NA
WP_011878911.1\|2827971_2828280_-	hypothetical protein	E2ELI6	Clostridium_phage	6.3e-12	42.9
WP_011878912.1\|2828294_2829491_-\|capsid	phage major capsid protein	E2ELI5	Clostridium_phage	6.5e-89	47.8
WP_156779762.1\|2829517_2830243_-\|protease	Clp protease ClpP	A0A0C5AJ10	Paenibacillus_phage	1.0e-44	44.1
WP_011878914.1\|2830290_2831457_-\|portal	phage portal protein	A0A1S7FYX7	Listeria_phage	1.4e-72	36.3
WP_156779668.1\|2831472_2833101_-\|terminase	terminase large subunit	E2ELI2	Clostridium_phage	4.8e-119	44.3
WP_011878916.1\|2833126_2833441_-	hypothetical protein	E2ELI1	Clostridium_phage	2.3e-22	51.5
WP_041274643.1\|2833551_2833908_-	hypothetical protein	Q9AZZ0	Lactococcus_phage	5.0e-05	32.1
WP_041274644.1\|2833956_2834466_-	hypothetical protein	NA	NA	NA	NA
WP_011878918.1\|2834932_2835601_-	hypothetical protein	NA	NA	NA	NA
WP_011878919.1\|2835774_2836296_-	hypothetical protein	I2E8Y5	Clostridium_phage	1.4e-16	30.9
WP_041274645.1\|2836303_2836507_-	hypothetical protein	NA	NA	NA	NA
WP_011878920.1\|2836509_2836908_-	hypothetical protein	NA	NA	NA	NA
WP_011878921.1\|2837224_2840188_-	DUF927 domain-containing protein	I3VYX9	Thermoanaerobacterium_phage	3.5e-83	33.0
WP_011878922.1\|2840251_2840497_-	hypothetical protein	NA	NA	NA	NA
WP_041274646.1\|2840545_2840770_-	hypothetical protein	NA	NA	NA	NA
WP_011878923.1\|2840777_2841143_-	VRR-NUC domain-containing protein	A0A1X9I642	Streptococcus_phage	8.2e-19	49.6
WP_011878924.1\|2841139_2842519_-	DEAD/DEAH box helicase	V5YTP6	Pseudomonas_phage	1.7e-85	41.2
WP_011878925.1\|2842522_2843197_-	single-stranded DNA-binding protein	A0A2K9V3K2	Faecalibacterium_phage	7.8e-15	41.9
WP_011878926.1\|2843199_2843844_-	hypothetical protein	NA	NA	NA	NA
WP_011878927.1\|2843854_2844349_-	siphovirus Gp157 family protein	A0A059T803	Listeria_phage	2.2e-19	38.9
WP_041274647.1\|2844554_2844953_-	hypothetical protein	NA	NA	NA	NA
WP_041274648.1\|2844943_2845138_-	hypothetical protein	NA	NA	NA	NA
WP_156779669.1\|2845180_2845342_-	hypothetical protein	NA	NA	NA	NA
WP_011878929.1\|2845560_2845935_-	hypothetical protein	NA	NA	NA	NA
WP_011878930.1\|2846076_2846694_-	phage repressor protein	A0A1W6JPC3	Staphylococcus_phage	9.6e-44	48.5
WP_011878931.1\|2846819_2847083_-	hypothetical protein	A0A0S2MVA3	Bacillus_phage	3.2e-09	41.9
WP_156779670.1\|2847199_2847883_+	helix-turn-helix domain-containing protein	E5DV74	Deep-sea_thermophilic_phage	5.0e-17	29.9
WP_011878933.1\|2847889_2849119_+\|integrase	site-specific integrase	A0A1B0T6A8	Bacillus_phage	7.3e-27	27.7
WP_011878934.1\|2849700_2850270_-\|protease	SprT family zinc-dependent metalloprotease	NA	NA	NA	NA
WP_011878935.1\|2850282_2850522_-	hypothetical protein	NA	NA	NA	NA
WP_011878936.1\|2850724_2852128_+\|transposase	IS1380-like element ISDre4 family transposase	NA	NA	NA	NA
WP_041274649.1\|2852400_2852712_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011878937.1\|2853039_2853267_-\|transposase	transposase	NA	NA	NA	NA
WP_156779763.1\|2853765_2854074_+	hypothetical protein	NA	NA	NA	NA
WP_041274969.1\|2854417_2854948_-	O-acetyl-ADP-ribose deacetylase	A0A0K1L687	Scale_drop_disease_virus	1.9e-40	53.8
WP_011878941.1\|2856048_2857152_-	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	4.1e-13	39.8
WP_011876859.1\|2857362_2858817_+\|transposase	IS1380-like element ISDre2 family transposase	NA	NA	NA	NA
2860361:2860377	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr_ID: NC_009253.1|WP_011878895.1|2814301_2814562_-|hypothetical-protein

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Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NC_009253.1|WP_011878895.1|2814301_2814562_-|hypothetical-protein

2814301_2814562_-

86 aa aa

2787452-2858817

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location	Mismatch
NC_009253_2	TypeI	2.46\|1082924\|38\|NC_009253\|PILER-CR,CRISPRCasFinder,CRT	1082924-1082961	38	2851123-2851086	0

1. spacer 2.46|1082924|38|NC_009253|PILER-CR,CRISPRCasFinder,CRT matches to NC_009253 position: 2851123-2851086, mismatch: 0

ttcttccaacaggatattattccattgcttatctttag	CRISPR spacer
ttcttccaacaggatattattccattgcttatctttag	Protospacer
**************************************

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_009253

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

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