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_016788	Corynebacterium diphtheriae HC04, complete sequence	1 crisprs	cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,csa3,cas3,WYL,cas4,DinG	0	1	4	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_016788_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_016788_1

39252-40195

TypeI-E

I-E

Consensus_repeat	Method
GTTTTCCCCGCACCAGCGGGGATGAGCC	PILER-CR
GTTTTCCCCGCACCAGCGGGGATGAGCC	CRISPRCasFinder
GTTTTCCCCGCACCAGCGGGGATGAGCC	CRT

15 spacers

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

The CRISPR arrays of NC_016788_1

>merge|NC_016788|1|39252-40195|PILER-CR,CRISPRCasFinder,CRT
GTTTTCCCCGCACCAGCGGGGATGAGCCCGACGCTGTGACAGCGTTCACCTTATTGGTGATGTTTTCCCCGCACCAGCGGGGATGAGCCCCGAGGCGCGGGGCTAATCCCCCAAGGCGGCGAGTTTTCCCCGCACCAGCGGGGATGAGCCCCCTATAGTGCTTGACAATATCGCTATCGACTGGTTTTCCCCGCACCAGCGGGGATGAGCCAGCTTCGGAGAGTCCGCAAAATCATGAGTAATAGTTTTCCCCGCACCAGCGGGGATGAGCCCCTGAAGTGCACCGCATGCCCCGTCGCTCACCTGTTTTCCCCGCACCAGCGGGGATGAGCCACACCCTCGGTGGTAGTGGGTTCCCCACAGCACGTTTTCCCCGCACCAGCGGGGATGAGCCCACCCTCACGGCGGTGACGGGTGCGACTGAGAAGTTTTCCCCGCACCAGCGGGGATGAGCCTATTGAATACGCCGCTCAGTGAGCGTGATCGTGGTTTTCCCCGCACCAGCGGGGATGAGCCCGCCCATTCGATGTCATCCCAGTGTGAGAGTATGTTTTTCCCCGCACCAGCGGGGATGAGCCCGATGACCGCGGCCTTGTGCAGGTCAAGATTAGGTTTTCCCCGCACCAGCGGGGATGAGCCGCATTCGAGGCTGCCGCCTAAGCCCCCAGCATGGTTTTCCCCGCACCAGCGGGGATGAGCCGCACACCGAAACCGCTTATTTATCGGGTAAGAAGTTTTCCCCGCACCAGCGGGGATGAGCCCACGGGATTTGCGCGCCGTTCAGGAGCTTCTAGGTTTTCCCCGCACTAGCGGGGATGAGCTGTTGTTAACGGATCCACGAGACACACCCAGTATGTTTTCCCCGCACTAGCGGGGATGAGCCGTCATAATCAGCACTGTCAATCCTCATGTATTGGTTTTCCCCGCGTCAGCGGGGATGAGCC

>NC_016788|1|1|39252-40134|PILER-CR
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGACGCTGTGACAGCGTTCACCTTATTGGTGAT
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCGAGGCGCGGGGCTAATCCCCCAAGGCGGCGA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCCTATAGTGCTTGACAATATCGCTATCGACTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	AGCTTCGGAGAGTCCGCAAAATCATGAGTAATA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCTGAAGTGCACCGCATGCCCCGTCGCTCACCT
GTTTTCCCCGCACCAGCGGGGATGAGCC	ACACCCTCGGTGGTAGTGGGTTCCCCACAGCAC
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACCCTCACGGCGGTGACGGGTGCGACTGAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	TATTGAATACGCCGCTCAGTGAGCGTGATCGTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGCCCATTCGATGTCATCCCAGTGTGAGAGTATG
TTTTTCCCCGCACCAGCGGGGATGAGCC	CGATGACCGCGGCCTTGTGCAGGTCAAGATTAG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCATTCGAGGCTGCCGCCTAAGCCCCCAGCATG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCACACCGAAACCGCTTATTTATCGGGTAAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACGGGATTTGCGCGCCGTTCAGGAGCTTCTAG
GTTTTCCCCGCACTAGCGGGGATGAGCT	GTTGTTAACGGATCCACGAGACACACCCAGTAT
GTTTTCCCCGCACTAGCGGGGATGAGCC

>NC_016788|1|1|39252-40195|CRISPRCasFinder
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGACGCTGTGACAGCGTTCACCTTATTGGTGAT
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCGAGGCGCGGGGCTAATCCCCCAAGGCGGCGA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCCTATAGTGCTTGACAATATCGCTATCGACTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	AGCTTCGGAGAGTCCGCAAAATCATGAGTAATA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCTGAAGTGCACCGCATGCCCCGTCGCTCACCT
GTTTTCCCCGCACCAGCGGGGATGAGCC	ACACCCTCGGTGGTAGTGGGTTCCCCACAGCAC
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACCCTCACGGCGGTGACGGGTGCGACTGAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	TATTGAATACGCCGCTCAGTGAGCGTGATCGTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGCCCATTCGATGTCATCCCAGTGTGAGAGTATG
TTTTTCCCCGCACCAGCGGGGATGAGCC	CGATGACCGCGGCCTTGTGCAGGTCAAGATTAG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCATTCGAGGCTGCCGCCTAAGCCCCCAGCATG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCACACCGAAACCGCTTATTTATCGGGTAAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACGGGATTTGCGCGCCGTTCAGGAGCTTCTAG
GTTTTCCCCGCACTAGCGGGGATGAGCT	GTTGTTAACGGATCCACGAGACACACCCAGTAT
GTTTTCCCCGCACTAGCGGGGATGAGCC	GTCATAATCAGCACTGTCAATCCTCATGTATTG
GTTTTCCCCGCGTCAGCGGGGATGAGCC

>NC_016788|1|1|39252-40195|CRT
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGACGCTGTGACAGCGTTCACCTTATTGGTGAT
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCGAGGCGCGGGGCTAATCCCCCAAGGCGGCGA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCCTATAGTGCTTGACAATATCGCTATCGACTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	AGCTTCGGAGAGTCCGCAAAATCATGAGTAATA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CCTGAAGTGCACCGCATGCCCCGTCGCTCACCT
GTTTTCCCCGCACCAGCGGGGATGAGCC	ACACCCTCGGTGGTAGTGGGTTCCCCACAGCAC
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACCCTCACGGCGGTGACGGGTGCGACTGAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	TATTGAATACGCCGCTCAGTGAGCGTGATCGTG
GTTTTCCCCGCACCAGCGGGGATGAGCC	CGCCCATTCGATGTCATCCCAGTGTGAGAGTATG
TTTTTCCCCGCACCAGCGGGGATGAGCC	CGATGACCGCGGCCTTGTGCAGGTCAAGATTAG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCATTCGAGGCTGCCGCCTAAGCCCCCAGCATG
GTTTTCCCCGCACCAGCGGGGATGAGCC	GCACACCGAAACCGCTTATTTATCGGGTAAGAA
GTTTTCCCCGCACCAGCGGGGATGAGCC	CACGGGATTTGCGCGCCGTTCAGGAGCTTCTAG
GTTTTCCCCGCACTAGCGGGGATGAGCT	GTTGTTAACGGATCCACGAGACACACCCAGTAT
GTTTTCCCCGCACTAGCGGGGATGAGCC	GTCATAATCAGCACTGTCAATCCTCATGTATTG
GTTTTCCCCGCGTCAGCGGGGATGAGCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_016788.1\|WP_014302658.1\|31248_32034_+\|thiazole-synthase	unknown	unknown	gnl\|CDD\|234687
NC_016788.1\|WP_014307730.1\|43878_44583_+\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|378243
NC_016788.1\|WP_014307723.1\|33040_33856_+\|bifunctional-hydroxymethylpyrimidine-kinase/phosphomethylpyrimidine-kinase	unknown	unknown	gnl\|CDD\|237797
NC_016788.1\|WP_014307724.1\|33881_34136_+\|hypothetical-protein	unknown	unknown	unknown
NC_016788.1\|WP_014307732.1\|46195_46543_+\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	pfam09707_cas2_CAS-I-E	gnl\|CDD\|378244
NC_016788.1\|WP_014309002.1\|32033_33044_+\|ThiF-family-adenylyltransferase	unknown	unknown	gnl\|CDD\|235528
NC_016788.1\|WP_014302666.1\|44584_45250_+\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	pfam08798_cas6e_CAS-I-E:CAS-IV	gnl\|CDD\|378050
NC_016788.1\|WP_014309005.1\|48942_50451_-\|serine/threonine-protein-kinase	unknown	unknown	gnl\|CDD\|270916
NC_016788.1\|WP_014306225.1\|29309_29978_+\|thiamine-phosphate-synthase	unknown	unknown	gnl\|CDD\|234590
NC_016788.1\|WP_003849883.1\|46550_46820_-\|cell-division-protein-CrgA	unknown	unknown	gnl\|CDD\|178907
NC_016788.1\|WP_014307721.1\|29974_31063_+\|glycine-oxidase-ThiO	unknown	unknown	gnl\|CDD\|274092
NC_016788.1\|WP_014309003.1\|42099_42726_+\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|378191
NC_016788.1\|WP_014309000.1\|25833_26451_+\|rhomboid-family-intramembrane-serine-protease	unknown	unknown	gnl\|CDD\|366759
NC_016788.1\|WP_014306232.1\|40422_42096_+\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09729_cas8e_CAS-I-E	gnl\|CDD\|378189
NC_016788.1\|WP_003853351.1\|31046_31247_+\|sulfur-carrier-protein-ThiS	unknown	unknown	gnl\|CDD\|273754
NC_016788.1\|WP_014309004.1\|46936_48946_-\|Stk1-family-PASTA-domain-containing-Ser/Thr-kinase	unknown	unknown	gnl\|CDD\|270916
NC_016788.1\|WP_014307731.1\|45253_46189_+\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_016788.1\|WP_014307727.1\|36213_39015_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|182031
NC_016788.1\|WP_014307729.1\|42740_43874_+\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|378153
NC_016788.1\|WP_014309001.1\|27526_29326_+\|phosphomethylpyrimidine-synthase-ThiC	unknown	unknown	gnl\|CDD\|236451

Protein	Function_ID	Function_description	E-value
NC_016788.1\|WP_014302658.1\|31248_32034_+\|thiazole-synthase	gnl\|CDD\|234687	PRK00208, thiG, thiazole synthase; Reviewed.	1.32018e-147
NC_016788.1\|WP_014307730.1\|43878_44583_+\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|378243	pfam09704, Cas_Cas5d, CRISPR-associated protein (Cas_Cas5). CRISPR is a term 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 small Cas family is represented by CT1134 of Chlorobium tepidum.	3.80295e-41
NC_016788.1\|WP_014307723.1\|33040_33856_+\|bifunctional-hydroxymethylpyrimidine-kinase/phosphomethylpyrimidine-kinase	gnl\|CDD\|237797	PRK14713, PRK14713, bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase.	2.23643e-109
NC_016788.1\|WP_014307729.1\|42740_43874_+\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|378153	pfam09344, Cas_CT1975, CT1975-like protein. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum.	4.24405e-159
NC_016788.1\|WP_014307732.1\|46195_46543_+\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|378244	pfam09707, Cas_Cas2CT1978, CRISPR-associated protein (Cas_Cas2CT1978). This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799. Cas proteins are found adjacent to a characteristic short, palindromic repeat cluster termed CRISPR, a probable mobile DNA element.	1.47008e-42
NC_016788.1\|WP_014309002.1\|32033_33044_+\|ThiF-family-adenylyltransferase	gnl\|CDD\|235528	PRK05600, PRK05600, thiamine biosynthesis protein ThiF; Validated.	0
NC_016788.1\|WP_014302666.1\|44584_45250_+\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|378050	pfam08798, CRISPR_assoc, CRISPR associated protein. This domain forms an anti-parallel beta strand structure with flanking alpha helical regions.	1.54139e-78
NC_016788.1\|WP_014309005.1\|48942_50451_-\|serine/threonine-protein-kinase	gnl\|CDD\|270916	cd14014, STKc_PknB_like, Catalytic domain of bacterial Serine/Threonine kinases, PknB and similar proteins. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. This subfamily includes many bacterial eukaryotic-type STKs including Staphylococcus aureus PknB (also called PrkC or Stk1), Bacillus subtilis PrkC, and Mycobacterium tuberculosis Pkn proteins (PknB, PknD, PknE, PknF, PknL, and PknH), among others. S. aureus PknB is the only eukaryotic-type STK present in this species, although many microorganisms encode for several such proteins. It is important for the survival and pathogenesis of S. aureus as it is involved in the regulation of purine and pyrimidine biosynthesis, cell wall metabolism, autolysis, virulence, and antibiotic resistance. M. tuberculosis PknB is essential for growth and it acts on diverse substrates including proteins involved in peptidoglycan synthesis, cell division, transcription, stress responses, and metabolic regulation. B. subtilis PrkC is located at the inner membrane of endospores and functions to trigger spore germination. Bacterial STKs in this subfamily show varied domain architectures. The well-characterized members such as S. aureus and M. tuberculosis PknB, and B. subtilis PrkC, contain an N-terminal cytosolic kinase domain, a transmembrane (TM) segment, and mutliple C-terminal extracellular PASTA domains. The PknB subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase.	2.13888e-107
NC_016788.1\|WP_014306225.1\|29309_29978_+\|thiamine-phosphate-synthase	gnl\|CDD\|234590	PRK00043, thiE, thiamine phosphate synthase.	4.01452e-63
NC_016788.1\|WP_003849883.1\|46550_46820_-\|cell-division-protein-CrgA	gnl\|CDD\|178907	PRK00159, PRK00159, putative septation inhibitor protein; Reviewed.	2.52021e-46
NC_016788.1\|WP_014307721.1\|29974_31063_+\|glycine-oxidase-ThiO	gnl\|CDD\|274092	TIGR02352, Glycine_oxidase, glycine oxidase ThiO. This family consists of the homotetrameric, FAD-dependent glycine oxidase ThiO, from species such as Bacillus subtilis that use glycine in thiamine biosynthesis. In general, members of this family will not be found in species such as E. coli that instead use tyrosine and the ThiH protein. [Biosynthesis of cofactors, prosthetic groups, and carriers, Thiamine].	1.44278e-129
NC_016788.1\|WP_014309003.1\|42099_42726_+\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|378191	pfam09485, CRISPR_Cse2, CRISPR-associated protein Cse2 (CRISPR_cse2). 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 family of proteins, represented by CT1973 from Chlorobaculum tepidum, is encoded by genes found in the CRISPR/Cas subtype Ecoli regions of many bacteria (most of which are mesophiles), and not in Archaea. It is designated Cse2.	2.33711e-31
NC_016788.1\|WP_014309000.1\|25833_26451_+\|rhomboid-family-intramembrane-serine-protease	gnl\|CDD\|366759	pfam01694, Rhomboid, Rhomboid family. This family contains integral membrane proteins that are related to Drosophila rhomboid protein. Members of this family are found in bacteria and eukaryotes. Rhomboid promotes the cleavage of the membrane-anchored TGF-alpha-like growth factor Spitz, allowing it to activate the Drosophila EGF receptor. Analysis has shown that Rhomboid-1 is an intramembrane serine protease (EC:3.4.21.105). Parasite-encoded rhomboid enzymes are also important for invasion of host cells by Toxoplasma and the malaria parasite.	1.78785e-26
NC_016788.1\|WP_014306232.1\|40422_42096_+\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|378189	pfam09481, CRISPR_Cse1, CRISPR-associated protein Cse1 (CRISPR_cse1). 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, represented by CT1972 from Chlorobaculum tepidum, is found in the CRISPR/Cas subtype Ecoli regions of many bacteria (most of which are mesophiles), and not in Archaea. It is designated Cse1.	4.80373e-108
NC_016788.1\|WP_003853351.1\|31046_31247_+\|sulfur-carrier-protein-ThiS	gnl\|CDD\|273754	TIGR01683, thiamine_biosynthesis_protein_ThiS, thiamine biosynthesis protein ThiS. This model represents ThiS, a small, ubiquitin-like thiamine biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Thiamine].	6.74856e-21
NC_016788.1\|WP_014309004.1\|46936_48946_-\|Stk1-family-PASTA-domain-containing-Ser/Thr-kinase	gnl\|CDD\|270916	cd14014, STKc_PknB_like, Catalytic domain of bacterial Serine/Threonine kinases, PknB and similar proteins. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. This subfamily includes many bacterial eukaryotic-type STKs including Staphylococcus aureus PknB (also called PrkC or Stk1), Bacillus subtilis PrkC, and Mycobacterium tuberculosis Pkn proteins (PknB, PknD, PknE, PknF, PknL, and PknH), among others. S. aureus PknB is the only eukaryotic-type STK present in this species, although many microorganisms encode for several such proteins. It is important for the survival and pathogenesis of S. aureus as it is involved in the regulation of purine and pyrimidine biosynthesis, cell wall metabolism, autolysis, virulence, and antibiotic resistance. M. tuberculosis PknB is essential for growth and it acts on diverse substrates including proteins involved in peptidoglycan synthesis, cell division, transcription, stress responses, and metabolic regulation. B. subtilis PrkC is located at the inner membrane of endospores and functions to trigger spore germination. Bacterial STKs in this subfamily show varied domain architectures. The well-characterized members such as S. aureus and M. tuberculosis PknB, and B. subtilis PrkC, contain an N-terminal cytosolic kinase domain, a transmembrane (TM) segment, and mutliple C-terminal extracellular PASTA domains. The PknB subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase.	2.44493e-122
NC_016788.1\|WP_014307731.1\|45253_46189_+\|type-I-E-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274693	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.	1.02086e-126
NC_016788.1\|WP_014307727.1\|36213_39015_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	2.52333e-92
NC_016788.1\|WP_014309001.1\|27526_29326_+\|phosphomethylpyrimidine-synthase-ThiC	gnl\|CDD\|236451	PRK09284, PRK09284, thiamine biosynthesis protein ThiC; Provisional.	0

>NC_016788.1|WP_014307727.1|36213_39015_+|CRISPR-associated-helicase/endonuclease-Cas3
MSVVEQADQWRRARSVQSYSLWAKSGSEDLYLRLPQHLIDAACVAEWLWNNWVSDSLKSTLSAAWRLPAEEVGRLYTFYAGTHDVGKATISFQRLVEKTSHGNYLLGPVREAGLSLQWTLNEGEGKKFPHGMASALIIAAWLEKHDIDPSSAARLSFIADAHHGFASDEELYRSHEDTLDYYPPEWLVVHAEILDSMAEITDIGETLEELADQSTPSAPAMQIMTGLVIMADWIASDEKAFPYVCDSSQHDRVVEGMSHVNLPPAWVPTDVPDNVETLFRDTFTWPDSYQVRPVQRAAVAVARAVQDPTLIIIEAPTGEGKTEAGLATSHILGQKTGAQGIFFAAPTMSTANGLFERTKNWAQCTSSRGEVASLYLAHSKNKLSRPFQSLRFTSIGEDDHLEKHGSVVASQWLSGRYRGILSDFVVGTVDQVLMMALQVRFSMLRHVGLAGKIVIIDEVHAYDAYMSQYLYLTLQWLAKYGVSVILMSATLPPQQRARLVNAYASQVCKKADASALNSDAYPLITAVNKKGISVTEVPQENSDTTIKIRRIDDSLPALGGMFSDLLVDGGIALVICNAIRRAQQAYDSLKAIFPDEVELHHAAFIATQRSEKEDALRESLGPHASRGEDRPWRRIVVATQVAEQSLDIDADVLVTDIAPIDLIIQRAGRLHRHERPHSDRPEILGQPQIFIRGINNEEISGEVPEFDGGAAAIYGEKILYATVAYLPDEFHRPSDVPKLVKNVYSDTPCIPENWKEQWEQACVKAKENYEKSVRKAQTFSFPQPHMARTLRDLFKQQHSNSVDKNEESGSAQVRDAEFSIEVVALLKTEYGYHPFGREEEIENGRELTWKEAEALAGNTVRLPAQMTRRDSDFNAVIDSLEAQTPPEWQRSGLLKGQVALFFDERGEARLGRFLVRYTNERGLEVEVCPKEDA
>NC_016788.1|WP_014307724.1|33881_34136_+|hypothetical-protein
MISSLGVRAWHKILGSLALSVQNQGPTVQPNGNAIVDTICRTAELGVTITGAEPVEPHVRAAKKTMNKRRKDILANIRHKINAP
>NC_016788.1|WP_014307723.1|33040_33856_+|bifunctional-hydroxymethylpyrimidine-kinase/phosphomethylpyrimidine-kinase
MTPHILTIAGSDPSGGAGIQADLKSIMAAGGYGMAAITALTAQNTCGVTAIHTPPTEFLSEQLRAISDDITIHAIKIGMIGSAEAATAIATWLGQLHHTPIVVLDPVMVATSGSVLGERHYFEPLLHHATVITPNLPELAVLTNNHDPEQTEHAAHSLAEQYDCAVLLKGGHRHGTNDLGNTWITASGPQFHAPSPRIHTTNTHGTGCSLSSALATRLAIEPPEPALHWATTWLNGAIAHGSDLNIGHGNGPVDHSYRLGEYSANCNTIES
>NC_016788.1|WP_014309002.1|32033_33044_+|ThiF-family-adenylyltransferase
MLDELERQRVARQLRLPGFGIEQQERLNKGRVLVIGAGGLGSPALQSLAAAGVGSIRLVDNDTVDVSNIQRQILFGVGDVGRSKVHVAAERLRAIQPRIRIDARTERLTAHNAHDLAEGCDVILDGSDTFATKFLCGDLAEITGIPLVWGSVLQFEGHMGVFTREVGLRDLFPEAPTQGLNCADAGVLGATTAVIANLMATETIKILAGIGTIQPGSITTYNALTSTFRTYTVGRDPLRPAARTLHTWTLPNEYELIDVREPHEIEHTPSGAHITLPQSMWNDTTAIQHALDNITIDDVVVVCASGIRSAAFIEQFAHLNPHLTFHNVPSGINELP
>NC_016788.1|WP_014302658.1|31248_32034_+|thiazole-synthase
MLTIADRSFQSHLIMGTGGASSFDTLEKSLIASGTELTTVAMRRHAAHTGAHGESVFELMQRLNITPLPNTAGCRTARDAILTAQLAREALDTSWIKVEVIADDTTLLPDVLELIDATETLTNDGFTVLAYTSDDPVVAQRLEDAGAAAVMPLGSPIGTGLGILNPHNIELICSRATVPVLLDAGIGTASDATLAMELGCAGVLLASAINRCINPITMATAMKHAVEAGRLAREAGRIPRREHAVASSSFEGLASWADEVL
>NC_016788.1|WP_003853351.1|31046_31247_+|sulfur-carrier-protein-ThiS
MDIYINDTPTAIESPQLTDIISNHCNGIRPGIAVAINQRVIPRSQWDTTTVTAGDHLDILTAVQGG
>NC_016788.1|WP_014307721.1|29974_31063_+|glycine-oxidase-ThiO
MKIAVVGGGIVGLSTAFELSSRGHSVHVFDPNPASGASHFAGGMLAPAAEVQFQQDPLFPLMKRAGKLWPDMVRRVAQRTNLPTGYRTEGTLVVAADRADAEHLKQLRATQEAAGMDVRPITTRQARGLEPALGPRLSAAVHIPNDTQVAPRVFLTALLDALDDCGVEVIKEKITDLEPLYQQFDVVVLAAGLGTQHLSPIPLALRPVRGDILRVQTEPGAVNMVVRGWVNDRPIYIIPRANGEIAIGATSREDERDLPSVEGIYDLLRDAIRVVPGIVDSSLIEANVGVRPGTPDDLPYLGWASDRLIISTGYFRHGILLSALGAHVTACLIDGTDPGIDLTACAPDRHHNERGETHGHLH
>NC_016788.1|WP_014306225.1|29309_29978_+|thiamine-phosphate-synthase
MLPTPRWGRDFDPRCYFVTGTGSVDHIVDVARQAARAGAGLIQVRSKPIAARDLYILGREVARAVAEVNPRTRVLIDDRVDVALALMNNGEHIHGVHVGQDDLPVRHVRALLGDNAIIGLTTGTLELVRASRQVAEVIDYIGAGPFRPTPTKDSGRAPVGLAGYPPLVAESLVPVVAIGDVRPEDAADLAATGVAGVAIVRALMNSQDVATDVKLVLKGFAQ
>NC_016788.1|WP_014309001.1|27526_29326_+|phosphomethylpyrimidine-synthase-ThiC
MSAASANSVTNPSAWENSEIHPKHSYSPIVSGDLEVPETEIQLDDSPTGPNDPVRIYRTRGPECDPTVGLKPLRAQWIDNREDTEEYAGRERNLADDGRSAQRRGAASLEWKGVKPTPRRAKQGKRVTQMHYARQGIITKEMEFVALREHMDPEFVRSEIARGRAIIPNNINHPESEPMIIGRKFLTKINANIGNSAVTSSIEEEVSKLRWATRWGADTVMDLSTGDDIHTTREWIIRNSPVPIGTVPIYQALEKVNGVAEDLTWEIFRDTVIEQCEQGVDYMTIHAGVLLAYIPLTTKRITGIVSRGGSIMAGWCLAHHKESFLYEHFDELCEIFAQYDVAFSLGDGLRPGSVADANDAAQFAELKTIGELARRAWEYDVQVMIEGPGHVPLNMVQENNELEQKWAHDAPFYTLGPLVTDIAPGYDHITSAIGAAHIAMGGTAMLCYVTPKEHLGLPNRDDVKTGVITYKLAAHAADVAKGHPGARAWDDAMSKARFEFRWHDQFALSLDPDTAIAYHDETLPAEPAKTAHFCSMCGPKFCSMRISQDIRDMFADKIADLGIPQVGGDAEAGMAAKSEEFVAQGSQLYSEVRDNAAHA
>NC_016788.1|WP_014309000.1|25833_26451_+|rhomboid-family-intramembrane-serine-protease
MVHTEVMNALKRAYGQTPATAVLCALTILIYLLTVVESRSIEHNLSDSWIADHWTLYGPYSHGLGWLRMVGTVFLHSGPTHLALNMFMLFFFGREIEHYLGSGRFTLAYIVSGIGASATVLLMDPLAPTVGASGAVYGLMAIFVAMSYRLRRDLTAPLILIAVNVGYSLLMDGVSLWGHLGGLLTGCVLGIVLVIAQTTRGGKRG
>NC_016788.1|WP_014306232.1|40422_42096_+|type-I-E-CRISPR-associated-protein-Cse1/CasA
MASLLEIRWILALDTQGNQISVGIRDIFAGEVQVAYIQGESPAQDYAVMRLLLGIFWRAHSMDIDMDVEPFDFLEWFNKMRRQLARKGKDQVVLDYLDRYADRFELFDAKAPFMQVAGLHVASGEYKHITTIIPEAQDEYFSMRGGKERDSVSIEEAARWLVYVHAFDYSGIKSGAVGDSRVKGGRGYPIGTGWTGMTGGTLVKGEDLLDTLLLNTTLETLNDPEDRPVWERTAYGPGERAVVGENSQPQGPADLATWQSRRIRLIPEGDRVVGVIVCNGDKIPDAGANVLDDPMTPYRFSTNKSKKDHDVYYPRPYDVERTMWKALDALVVAETDGGFSAKEKAPKRPKNLASLAELAVQKANVPAVLNVDLVSVEYGPQASSVATTYASRMSMPVVLLLTEAKHLRGKVREIARATTQSAVALGQFSGNLLDAAGGEYAFQPAITDRVLAELEPRFNDWLERLRDISPEQAIQDNESLTDLEKAWQHTARSVIDQHARILLRGAGPKALAGRIQYRDADDHKGRVVSAAGYYRMLQRKLDEVLPLTVRKQEKEGE
>NC_016788.1|WP_014309003.1|42099_42726_+|type-I-E-CRISPR-associated-protein-Cse2/CasB
MAENKDALRAAVGATCHRLQEAYLGDRNSARHHSARATLAELRHGATVDIRKNPLGLEKVLFAMAGDFSDRLVGHGDNPSPSEEAAFVALTLFGVHMKSATSPVHIPQVSFASACGRLHSLGTSDSIKPRVDAMLLASQEQARLVHIRSLVTLLRANNIGFDYGLLARDLRALNDPKKRAGIQLRWGRDFAIGHFRNFNSTTNSTQTA
>NC_016788.1|WP_014307729.1|42740_43874_+|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTLVVDIHALQTVPPSLINRDDMGAPKTAIFGGVPRQRVSSQSWKRAVRRFFEDEIDKSTVGLRSRKLPENIVSRAIALGSDLTEDQILDGVRQLFKAAKISLVEPKAPKKGEELPEDAEKYPTTGYLLFLSPYQLDRAAQAVVDKNGEKFTKAEAEDILDTKHSVDMALFGRMLADAPAYNIDASVQVAHAISVHESQPEFDYFTAVDDVVEDAEETGAGMIGTTQMMSSTLYRFATVNVDGLVKNLEDTELAHEAVRMFIRAFAESMPTGKQNSFANNTLPELMYVAVRDTRSVSLVNAFEEPVAAVDGSRRQAAATALAREERDIEEAYGMKPLASFVVALGELGTDFEELAEKVTLTELGEAVIRTLSAQEAK
>NC_016788.1|WP_014307730.1|43878_44583_+|type-I-E-CRISPR-associated-protein-Cas5/CasD
MSYSLLLLLKGPLQSWGDESRYNTRATGNTPSKSGVIGLLAAAQGRQRTDSIEDLVALDFAVRVDQSGTLLRDYQTAQPWQKAPKANASLVTRHFLSDAAFVAAIGSEDKELLEGLQGHLRQPTYPLFLGRRSCPAPINLDLGIVDKPVVEALMAHDAWHATSAHQQERSRDVELPIYRDGKPGEHGVPRQDVPLSFAQEHRRYGWRTVVYAGSKSIVNEKGTANDPFFEAVIS
>NC_016788.1|WP_014302666.1|44584_45250_+|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MATFTKVLINPARRQGRKYLTNPHMLHAAVMHGFPPDCDTSTERILWRLDERGHEHILYVVGPEKPTIDHIVEEAGWDVRPPQSADYDRLLSQLTKGQKWNFELVANPTHTIPVQGGKRGKVVAHSTAAKQLEWLHRKAESMGVSFGTLENSSAQVVGKKTLDFHRSRPNGERGNRVHLVTARFSGQLEVVDADKLRATLIGGVGRAKGYGCGLLTLARGQ
>NC_016788.1|WP_014307731.1|45253_46189_+|type-I-E-CRISPR-associated-endonuclease-Cas1
MSATPSQSPLDRLLLPRMESRLSFLYVERAVINRDGNALTIKDQRGIAHVPATQLAVVLLGPGTKVTYAAMALLGDAGASVVWVGEKGVRYYAHGRPPAKTSRFAEAHARLWSNQRSRLRCARRMYDMRFPGEEISQLSLAQLRGREGARMKKIYAAEAQRTGVVWTRRNYDPQDFESGDPINRALTEGSAALYGIAHAVIVGLGFIPSLGIVHTGTDRAFVYDIADLYKAEISIPAAFEAVAAIPSGDDLNVRARIRDKVVSTRLMQRMVHDLQDLMEIPEEDTYSDVDLMLWSELEVIAAGVNWSTERF
>NC_016788.1|WP_014307732.1|46195_46543_+|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MIVFVVSAVPAGLRGDLTKWLMEISPGVFVGNPSARIRDLLWERTTELSKDGRALLIYSSNNEQGMEYRTHRHEWEPTDFDGLTLMMRPDNTKPSSYQRRTGWSIARNVRKNRGN
>NC_016788.1|WP_003849883.1|46550_46820_-|cell-division-protein-CrgA
MPKSKINHSSTAYTAGSTANRTPVKINSTGTPLWYKIIMFGLILAGLLWLIVNYLAGQDISFMTELGPWNYGIGFGLFIIGLLMTMGWR
>NC_016788.1|WP_014309004.1|46936_48946_-|Stk1-family-PASTA-domain-containing-Ser/Thr-kinase
MTDIVLADRYRLGDVIGTGGMSEVYEATDVLLGRKVAVKMLRADLARDVNFRERFRREAQNSGKLNHPAIVAVYDTGETPRAGLNTPYIVMELVNGRTLRDIVREDGPLTPSQAAHTLIPVCHALQVSHDAGIIHRDIKPANVMITNTGAVKIMDFGIARALDDATSAMTQTSAVIGTAQYLSPEQARGKLADARSDVYALGCVLYETLTGKPPFEGETPFAVAYQHVQEDPVKPSEYIADLSPTAAINVDAVVLTAMAKHPGDRYQTAQEMCADLERLERNAVTDAARHYVTPTSFATQDPASTTVVPVTQVAELDHAEAGAGIGAGAVPAGSAAVAGSGGAHAAPRSSNRGLRILAAILTVLVLAVGAGFAIDYFGGGPFSQRSTVSIPKLQNSTQQDAVSQLEKLGLQVNVIEEPNPDIPRGKVIRTNPTDGSNVQRNSTVRLTISSGKEITEVPDLSGKNTADAVKILEAAGLLLDPTVREDSSDTVPKGEIIEVSPAAGSQVSRGSKVSITVSTGVETVRVPVITGMKWDQAEGNLTSLGFKPEVVHVDSVEPAGTVVAVPDEGAEVPKGSSVTVQISNGAMFTVPEITRQTIGDAVRILHDAGWKGNASRLIQAAKVPTVAVTDQNLIASQLPTPGTALRKDAPIEIRLYEFNLAALVPPAQH
>NC_016788.1|WP_014309005.1|48942_50451_-|serine/threonine-protein-kinase
MTQSQSPDPALQALVGSDYALQWVVGNGGMSTVWLADDLRNQREVAIKVLRPEFSDNEEFLSRFRNEALASEHIDSDNVVRTYDYREVTDDMGRTLCFIVMEYVRGESLADMLARKGRLEEDLALDVLEQAAHGLSIIHRMGMVHRDIKPGNLLITQNGQVKITDFGIAKAAAAVPLTRTGMVVGTAQYVSPEQAQGRDVTAATDVYSLGVVGYEMLVGQRPFTGDSSVSVAIAHINQAPPAMPTSVSAPARELIGIALRKDPAHRYADGNELALAVSATRMGQRPPQPKSAPLQHIAPQPAPTESTYALGATAQPTTVIPATGQVPAAPAAAAAYPASTVIPAGTPRQEPEKQSSGWGAGIVVGALAALLLGTAAWAASQGMFDDLFDKTSQSSEPSVPPPPVTATVTETPTPQITTVVPEPLPTSRPEPTPSETKRTPDESHPTSDHQLPSVRPSHNGRPSSQAPQAPTQDADQPAESPAPDTLDSLIENLNKLNQGGAQ

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Click the colored protein region to show detailed information

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_CP030772	Streptomyces sp. YIM 121038 plasmid pSSP121038, complete sequence	688346-688378	7	0.788
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NC_002147	Agrobacterium tumefaciens MAFF301001 plasmid pTi-SAKURA, complete sequence	44204-44236	9	0.727
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_MK439386	Agrobacterium tumefaciens strain T37 plasmid pTiT37, complete sequence	77049-77081	9	0.727
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_KY000041	Agrobacterium tumefaciens strain CFBP296 plasmid pTi_CFBP296, complete sequence	98834-98866	9	0.727
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_KY000044	Agrobacterium fabrum strain CFBP1933 plasmid pTi_CFBP1933, complete sequence	33264-33296	9	0.727
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_KY000057	Agrobacterium fabrum strain CFBP5505 plasmid pTi_CFBP5505, complete sequence	76774-76806	9	0.727
NC_016788_1	1.10\|39830\|33\|NC_016788\|PILER-CR,CRISPRCasFinder,CRT	39830-39862	33	NZ_KY000046	Agrobacterium genomosp. 1 strain CFBP2177 plasmid pTi_CFBP2177, complete sequence	87895-87927	9	0.727

1. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP030772 (Streptomyces sp. YIM 121038 plasmid pSSP121038, complete sequence) position: , mismatch: 7, identity: 0.788

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
cgatgaccgcggcctggtgcaggtcggtgtggg	Protospacer
*************** *********.. .* .*

2. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NC_002147 (Agrobacterium tumefaciens MAFF301001 plasmid pTi-SAKURA, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

3. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_MK439386 (Agrobacterium tumefaciens strain T37 plasmid pTiT37, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

4. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KY000041 (Agrobacterium tumefaciens strain CFBP296 plasmid pTi_CFBP296, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

5. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KY000044 (Agrobacterium fabrum strain CFBP1933 plasmid pTi_CFBP1933, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

6. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KY000057 (Agrobacterium fabrum strain CFBP5505 plasmid pTi_CFBP5505, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

7. spacer 1.10|39830|33|NC_016788|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KY000046 (Agrobacterium genomosp. 1 strain CFBP2177 plasmid pTi_CFBP2177, complete sequence) position: , mismatch: 9, identity: 0.727

cgatgaccgcggccttgtgcaggtcaagattag	CRISPR spacer
caatgcccgcggccttatgcaggtcatcgacgg	Protospacer
*.*** **********.*********  . ..*

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

651213 : 767536

100

Staphylococcus_phage(28.57%)

protease,integrase,transposase

attL 658439:658467|attR 760088:760107

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_014309188.1\|651213_652605_-\|protease	zinc-dependent metalloprotease	NA	NA	NA	NA
WP_014309189.1\|652685_653738_+	PDZ domain-containing protein	NA	NA	NA	NA
WP_014306622.1\|653749_654448_-	hypothetical protein	NA	NA	NA	NA
WP_014309190.1\|654498_655002_-	hypothetical protein	NA	NA	NA	NA
WP_014309191.1\|655174_658138_+	UPF0182 family protein	NA	NA	NA	NA
658439:658467	attL	NA	NA	NA	NA
WP_010934530.1\|658488_659868_-\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	7.9e-38	33.7
658439:658467	attL	NA	NA	NA	NA
WP_162470199.1\|661558_661717_-	hypothetical protein	NA	NA	NA	NA
WP_014309197.1\|661868_662720_-	hypothetical protein	NA	NA	NA	NA
WP_014317689.1\|663368_663611_+	hypothetical protein	NA	NA	NA	NA
WP_014316483.1\|663716_664298_+	ATP-binding cassette domain-containing protein	A0A2H4PQG7	Staphylococcus_phage	3.8e-10	27.2
WP_014316482.1\|664294_665308_+	hypothetical protein	NA	NA	NA	NA
WP_158307707.1\|665407_665563_+	hypothetical protein	NA	NA	NA	NA
WP_014309201.1\|665510_666692_+	phosphotransferase	NA	NA	NA	NA
WP_014309202.1\|666688_667504_+	hypothetical protein	NA	NA	NA	NA
WP_080563684.1\|667445_668057_+	flavoprotein	NA	NA	NA	NA
WP_044026475.1\|669432_670068_+	hypothetical protein	NA	NA	NA	NA
WP_014309204.1\|670142_670592_+	antitoxin VbhA family protein	NA	NA	NA	NA
WP_014309205.1\|670618_670993_+	Fic family protein	NA	NA	NA	NA
WP_080563474.1\|670998_671163_+	hypothetical protein	NA	NA	NA	NA
WP_014309206.1\|671560_671761_-	hypothetical protein	NA	NA	NA	NA
WP_014309207.1\|671821_672979_+	hypothetical protein	NA	NA	NA	NA
WP_014309208.1\|673205_673445_-	hypothetical protein	NA	NA	NA	NA
WP_014309209.1\|673502_673718_-	hypothetical protein	NA	NA	NA	NA
WP_080563713.1\|674313_674475_-\|integrase	tyrosine-type recombinase/integrase	A0A2P1CCU8	Gordonia_phage	8.6e-05	59.5
WP_014309217.1\|678635_679331_-	sodium:glutamate symporter	NA	NA	NA	NA
WP_014309218.1\|679860_680871_-\|protease	trypsin-like serine protease	NA	NA	NA	NA
WP_014309219.1\|680873_681830_-	DUF418 domain-containing protein	NA	NA	NA	NA
WP_014309220.1\|682042_682372_+	hypothetical protein	NA	NA	NA	NA
WP_014309221.1\|682596_683076_+	hypothetical protein	NA	NA	NA	NA
WP_014309222.1\|683513_684995_+	methylmalonyl-CoA carboxytransferase subunit 5S	NA	NA	NA	NA
WP_014309223.1\|685007_686564_+	acyl-CoA carboxylase subunit beta	NA	NA	NA	NA
WP_003850577.1\|686577_686841_+	hypothetical protein	NA	NA	NA	NA
WP_003850583.1\|686865_687234_+	biotin/lipoyl-binding protein	NA	NA	NA	NA
WP_014309224.1\|687436_688528_+	hypothetical protein	NA	NA	NA	NA
WP_014309225.1\|688546_689335_-	histidinol-phosphatase	NA	NA	NA	NA
WP_014306634.1\|689390_690206_-	inositol monophosphatase family protein	NA	NA	NA	NA
WP_050816678.1\|690385_691543_+	peptide chain release factor 2	NA	NA	NA	NA
WP_080571694.1\|691492_693037_-	AbgT family transporter	NA	NA	NA	NA
WP_003850596.1\|693280_693970_+	cell division ATP-binding protein FtsE	G9BWD6	Planktothrix_phage	1.2e-26	37.7
WP_003850598.1\|693986_694889_+	ABC transporter permease	NA	NA	NA	NA
WP_003850600.1\|694993_695485_+	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	1.5e-36	52.2
WP_010934530.1\|696075_697455_+\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	7.9e-38	33.7
696027:696055	attR	NA	NA	NA	NA
WP_014308103.1\|697564_700498_+	type 2 lantipeptide synthetase LanM	NA	NA	NA	NA
696027:696055	attR	NA	NA	NA	NA
WP_010934533.1\|702616_703495_+	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	6.6e-30	35.4
WP_010934534.1\|703494_704292_+	lantibiotic ABC transporter permease	NA	NA	NA	NA
WP_010934535.1\|704457_704724_-\|transposase	transposase	NA	NA	NA	NA
WP_013170013.1\|705758_706040_+\|transposase	transposase	NA	NA	NA	NA
WP_044026255.1\|706112_706916_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_010934538.1\|707138_707480_-	cupin domain-containing protein	NA	NA	NA	NA
WP_010934539.1\|707513_708317_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_014308107.1\|708438_708669_-\|transposase	transposase	NA	NA	NA	NA
WP_080571695.1\|710021_710558_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	Q6J1X2	Lactobacillus_phage	6.9e-06	32.5
WP_014308109.1\|710612_710777_-\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_050816680.1\|710827_711100_-	hypothetical protein	NA	NA	NA	NA
WP_014309234.1\|717389_718598_-\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_014308112.1\|719347_720076_-	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_111933930.1\|720123_720303_-	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_014308113.1\|720269_720668_-	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_014308114.1\|720672_721320_-	DUF3239 domain-containing protein	NA	NA	NA	NA
WP_014308115.1\|721324_722989_-	DEAD/DEAH box helicase	A0A1D8BJ75	Sulfolobus_islandicus_filamentous_virus	9.6e-14	23.3
WP_014309235.1\|723034_725353_-	helicase-associated domain-containing protein	NA	NA	NA	NA
WP_014301577.1\|725419_725608_+	hypothetical protein	NA	NA	NA	NA
WP_010934546.1\|725816_726440_-	DUF3235 domain-containing protein	A0A2D0ZMX2	Rhodococcus_phage	1.3e-27	59.0
WP_003850654.1\|727120_727510_+	cold shock domain-containing protein	NA	NA	NA	NA
WP_014301578.1\|727616_728141_-	DUF2771 domain-containing protein	NA	NA	NA	NA
WP_014309236.1\|728127_728994_-	glutaminyl-peptide cyclotransferase	NA	NA	NA	NA
WP_014309237.1\|729033_729798_+	DUF3027 domain-containing protein	NA	NA	NA	NA
WP_003850661.1\|729971_731459_+	NCS2 family permease	A0A0R6PHV4	Moraxella_phage	3.1e-40	30.8
WP_050816682.1\|731538_732435_+	RNA methyltransferase	NA	NA	NA	NA
WP_014303114.1\|732431_733328_-	hypothetical protein	NA	NA	NA	NA
WP_014309239.1\|733348_734398_-	DUF3071 domain-containing protein	NA	NA	NA	NA
WP_014309241.1\|734599_735730_-	phosphoserine transaminase	NA	NA	NA	NA
WP_003850673.1\|736418_737711_+	citrate synthase	NA	NA	NA	NA
WP_003850674.1\|737877_738237_+	FKBP-type peptidyl-prolyl cis-trans isomerase	NA	NA	NA	NA
WP_014301581.1\|738323_739829_-	acetyl-CoA carboxylase carboxyltransferase subunit alpha/beta	NA	NA	NA	NA
WP_014309242.1\|739921_740794_+	aldo/keto reductase	A0A2H4PQR8	Staphylococcus_phage	3.6e-52	39.8
WP_014309243.1\|740793_741570_+	enoyl-CoA hydratase	NA	NA	NA	NA
WP_014309244.1\|741880_743089_-\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_014301583.1\|743617_743959_+	DUF485 domain-containing protein	NA	NA	NA	NA
WP_014309245.1\|743962_745615_+	cation acetate symporter	NA	NA	NA	NA
WP_010934561.1\|745741_746596_+	hypothetical protein	NA	NA	NA	NA
WP_014309246.1\|746588_747497_-	DUF1906 domain-containing protein	A0A2D1GEF2	Gordonia_phage	3.5e-26	37.1
WP_014309247.1\|747625_748825_-	cation:proton antiporter	NA	NA	NA	NA
WP_044026483.1\|749082_749535_-	type II toxin-antitoxin system death-on-curing family toxin	NA	NA	NA	NA
WP_014309248.1\|749546_750113_-	SocA family protein	NA	NA	NA	NA
WP_014309249.1\|750445_750721_+	hypothetical protein	NA	NA	NA	NA
WP_014309234.1\|751562_752771_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_014309250.1\|752977_753916_-	tyrosine recombinase XerC	NA	NA	NA	NA
WP_014309251.1\|754027_755128_-	hypothetical protein	NA	NA	NA	NA
WP_014309252.1\|755315_755642_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_014309253.1\|755924_756707_+\|integrase	integrase	NA	NA	NA	NA
WP_021335603.1\|756733_757042_+	hypothetical protein	NA	NA	NA	NA
WP_014309254.1\|757020_757689_+	hypothetical protein	NA	NA	NA	NA
WP_014309255.1\|757780_758356_+	hypothetical protein	NA	NA	NA	NA
WP_014309256.1\|758819_759374_-	hypothetical protein	NA	NA	NA	NA
WP_014309258.1\|761740_762847_-	hypothetical protein	NA	NA	NA	NA
WP_014309259.1\|763056_764028_+	XamI family restriction endonuclease	NA	NA	NA	NA
WP_014309260.1\|764014_765574_+	Eco57I restriction-modification methylase domain-containing protein	NA	NA	NA	NA
WP_177224418.1\|765704_766091_-	hypothetical protein	NA	NA	NA	NA
WP_014308372.1\|766186_767536_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.2e-34	36.1

DBSCAN-SWA_2

1796760 : 1812517

Agrobacterium_phage(40.0%)

protease,integrase,transposase,tRNA

attL 1787948:1787963|attR 1817076:1817091

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1787948:1787963	attL	NA	NA	NA	NA
WP_014308109.1\|1796760_1796925_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_158308777.1\|1797129_1797516_+\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_014308107.1\|1798868_1799099_+\|transposase	transposase	NA	NA	NA	NA
WP_014309471.1\|1800254_1800668_-	DUF4233 domain-containing protein	NA	NA	NA	NA
WP_014308610.1\|1800664_1802161_-	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA
WP_014309472.1\|1802157_1804866_-\|tRNA	valine--tRNA ligase	A0A1V0S951	Catovirus	2.1e-135	37.4
WP_014308612.1\|1804960_1805941_-	malate dehydrogenase	NA	NA	NA	NA
WP_014303750.1\|1806423_1807176_+	TetR family transcriptional regulator	NA	NA	NA	NA
WP_010935337.1\|1807211_1808504_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	3.3e-131	54.2
WP_014309473.1\|1808650_1811176_-	aminodeoxychorismate synthase component I	S4VNU7	Pandoravirus	1.6e-65	30.4
WP_003852475.1\|1811270_1811900_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	3.6e-38	44.0
WP_003852476.1\|1811917_1812517_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	3.3e-41	46.7
1817076:1817091	attR	NA	NA	NA	NA

DBSCAN-SWA_3

1853507 : 1911548

Bacillus_phage(18.18%)

protease,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014308630.1\|1853507_1854080_-\|protease	rhomboid family intramembrane serine protease	NA	NA	NA	NA
WP_014309488.1\|1854076_1855009_-	P1 family peptidase	NA	NA	NA	NA
WP_014309489.1\|1855008_1855545_-	DUF2017 domain-containing protein	NA	NA	NA	NA
WP_003852614.1\|1855561_1855903_-\|protease	ATP-dependent Clp protease adapter ClpS	NA	NA	NA	NA
WP_014309490.1\|1855964_1857278_+	nicotinate phosphoribosyltransferase	NA	NA	NA	NA
WP_014309491.1\|1857309_1859277_+	ATP-dependent DNA helicase	A0A127AW80	Bacillus_phage	4.0e-67	30.0
WP_014309493.1\|1859603_1860314_-\|transposase	IS6 family transposase	A0A077SL39	Escherichia_phage	4.7e-79	59.0
WP_158308778.1\|1860341_1860557_-	hypothetical protein	NA	NA	NA	NA
WP_014309495.1\|1861722_1862067_+	hypothetical protein	NA	NA	NA	NA
WP_010934530.1\|1862530_1863910_-\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	7.9e-38	33.7
WP_014309500.1\|1866465_1867749_-	phosphoserine phosphatase SerB	NA	NA	NA	NA
WP_003852637.1\|1867855_1869550_-	cytochrome c oxidase subunit I	NA	NA	NA	NA
WP_014308636.1\|1869911_1870898_-	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A160DHK0	Gordonia_phage	1.5e-139	77.6
WP_014309501.1\|1871208_1871694_+	ferritin	NA	NA	NA	NA
WP_014308637.1\|1871744_1873892_-	class 1b ribonucleoside-diphosphate reductase subunit alpha	V9VI16	Lactococcus_phage	3.9e-209	51.6
WP_010935389.1\|1873953_1874379_-	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	H9NCC2	Sphingomonas_phage	8.1e-10	33.6
WP_010935390.1\|1874472_1874706_-	glutaredoxin-like protein NrdH	V5UN81	Mycobacterium_phage	2.9e-17	54.5
WP_014309502.1\|1875007_1875880_+	phytoene/squalene synthase family protein	NA	NA	NA	NA
WP_014309503.1\|1875872_1877399_+	phytoene desaturase	NA	NA	NA	NA
WP_003852698.1\|1877467_1877590_-	50S ribosomal protein L36	NA	NA	NA	NA
WP_014309504.1\|1877743_1878577_+	ammonia-dependent NAD(+) synthetase	G3MA24	Bacillus_virus	2.5e-79	56.2
WP_014309505.1\|1878573_1879011_-	pyridoxamine 5'-phosphate oxidase family protein	NA	NA	NA	NA
WP_010935395.1\|1879057_1879366_-	DUF2249 domain-containing protein	NA	NA	NA	NA
WP_014303787.1\|1879369_1880758_-	multicopper oxidase domain-containing protein	NA	NA	NA	NA
WP_014309506.1\|1880747_1882040_-	hypothetical protein	NA	NA	NA	NA
WP_014302274.1\|1882043_1883147_-	hypothetical protein	NA	NA	NA	NA
WP_014309507.1\|1883244_1883910_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_014309508.1\|1884110_1884845_-	thioredoxin domain-containing protein	NA	NA	NA	NA
WP_010935400.1\|1884894_1885347_-	DoxX family membrane protein	NA	NA	NA	NA
WP_014309509.1\|1885385_1887023_-	alpha-D-glucose phosphate-specific phosphoglucomutase	NA	NA	NA	NA
WP_014309510.1\|1887088_1887376_+	fluoride efflux transporter family protein	NA	NA	NA	NA
WP_003852727.1\|1887372_1887687_+	CrcB family protein	NA	NA	NA	NA
WP_014308646.1\|1887683_1890248_-	FtsX-like permease family protein	NA	NA	NA	NA
WP_010935405.1\|1890248_1890998_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	7.1e-33	37.9
WP_014309234.1\|1891854_1893063_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_003852741.1\|1899191_1900448_-	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	NA	NA	NA	NA
WP_014308648.1\|1900486_1901062_+	cob(I)yrinic acid a,c-diamide adenosyltransferase	NA	NA	NA	NA
WP_010935406.1\|1901114_1901960_-	GAF domain-containing protein	NA	NA	NA	NA
WP_014308649.1\|1902642_1903578_+	cysteine synthase A	A0A1X9I5K7	Streptococcus_phage	2.1e-79	52.3
WP_010935408.1\|1903682_1904249_+	serine O-acetyltransferase	NA	NA	NA	NA
WP_014309511.1\|1904290_1904572_-	N-acetyltransferase	NA	NA	NA	NA
WP_014309512.1\|1904953_1906030_-	iron-containing alcohol dehydrogenase family protein	NA	NA	NA	NA
WP_014309513.1\|1906513_1909111_-	DEAD/DEAH box helicase family protein	NA	NA	NA	NA
WP_014309514.1\|1909110_1910952_-	site-specific DNA-methyltransferase	A0A220NUF4	Escherichia_phage	1.3e-40	29.5
WP_014309516.1\|1911377_1911548_+\|transposase	transposase	NA	NA	NA	NA

DBSCAN-SWA_4

2268845 : 2312475

Macacine_betaherpesvirus(28.57%)

holin,integrase,transposase,tRNA

attL 2258264:2258278|attR 2315203:2315217

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2258264:2258278	attL	NA	NA	NA	NA
WP_014307479.1\|2268845_2269625_+\|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	NA	NA	NA	NA
WP_014302497.1\|2269621_2270242_+	NYN domain-containing protein	NA	NA	NA	NA
WP_014309663.1\|2270256_2272497_+	MMPL family transporter	NA	NA	NA	NA
WP_014309664.1\|2272498_2273542_+	UPF0104 family protein	NA	NA	NA	NA
WP_014309665.1\|2273538_2273895_+	DUF3054 domain-containing protein	NA	NA	NA	NA
WP_004567314.1\|2274053_2274254_+	hypothetical protein	NA	NA	NA	NA
WP_014308849.1\|2274420_2274672_+\|transposase	transposase	NA	NA	NA	NA
WP_004567317.1\|2275086_2278086_-	VaFE repeat-containing surface-anchored protein	NA	NA	NA	NA
WP_014308850.1\|2278503_2278938_-	endo-beta-N-acetylglucosaminidase	NA	NA	NA	NA
WP_014308851.1\|2279090_2279507_-	endo-beta-N-acetylglucosaminidase F2	NA	NA	NA	NA
WP_014309666.1\|2279662_2281213_-	acyl-CoA carboxylase subunit beta	NA	NA	NA	NA
WP_014309667.1\|2281224_2285985_-	acyltransferase domain-containing protein	NA	NA	NA	NA
WP_004567325.1\|2286083_2287898_-	AMP-binding protein	NA	NA	NA	NA
WP_004567333.1\|2287972_2288884_-	cutinase family protein	NA	NA	NA	NA
WP_004567335.1\|2288889_2289405_-	hypothetical protein	NA	NA	NA	NA
WP_014308854.1\|2289404_2291321_-	hypothetical protein	A0A2I6B2Q9	Macacine_betaherpesvirus	4.9e-38	37.6
WP_004567341.1\|2291681_2292698_-	esterase family protein	A0A2I6AZZ6	Macacine_betaherpesvirus	5.4e-36	35.1
WP_014309668.1\|2292864_2294553_-	arabinofuranosyl transferase C	NA	NA	NA	NA
WP_014309669.1\|2294561_2295539_-	decaprenyl-phosphate phosphoribosyltransferase	NA	NA	NA	NA
WP_004567346.1\|2295535_2296030_-	phosphatase PAP2 family protein	NA	NA	NA	NA
WP_014309670.1\|2296029_2298015_-	glycosyltransferase	NA	NA	NA	NA
WP_014309671.1\|2298099_2298585_-	phosphatase PAP2 family protein	NA	NA	NA	NA
WP_014309672.1\|2298655_2300233_-	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_014308860.1\|2300299_2302525_-\|holin	choline BCCT transporter BetT	A0A2I7QNT1	Vibrio_phage	3.3e-17	25.9
WP_014309673.1\|2302796_2304590_+\|holin	choline dehydrogenase	A0A1V0S9M4	Catovirus	2.1e-54	28.1
WP_014302517.1\|2304775_2305939_-	UDP-galactopyranose mutase	E4ZFQ1	Streptococcus_phage	1.3e-94	46.1
WP_014308865.1\|2306746_2307589_-	type IV toxin-antitoxin system AbiEi family antitoxin	NA	NA	NA	NA
WP_014308867.1\|2307833_2308109_-	ATP-binding cassette domain-containing protein	NA	NA	NA	NA
WP_014309674.1\|2308579_2310400_+	N-acetylmuramoyl-L-alanine amidase	A0A159B6I5	Gordonia_phage	8.9e-05	34.8
WP_004567362.1\|2310639_2310873_-	ribbon-helix-helix protein, CopG family	NA	NA	NA	NA
WP_014308869.1\|2311182_2311305_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_080564351.1\|2311687_2311867_+	hypothetical protein	NA	NA	NA	NA
WP_014308870.1\|2311832_2312174_+\|integrase,transposase	DDE-type integrase/transposase/recombinase	Q8W6R2	Burkholderia_virus	8.8e-07	42.0
WP_158308781.1\|2312238_2312475_+\|transposase	transposase	NA	NA	NA	NA
2315203:2315217	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

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