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_014355	Candidatus Nitrospira defluvii chromosome, complete genome	1 crisprs	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,PD-DExK,WYL,csa3,csx1	0	6	6	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_014355_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_014355_1

1475361-1477101

TypeI-E

I-E

Consensus_repeat	Method
GTGTTCCCCGCGCGAGTGGGGATGAACCG	PILER-CR
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CRISPRCasFinder
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CRT

28 spacers

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

The CRISPR arrays of NC_014355_1

>merge|NC_014355|1|1475361-1477101|PILER-CR,CRISPRCasFinder,CRT
GTGTTCCCCGCGCGAGTGGGGATGAACCGGAGGATACCCAGATGGCGAGAACACTACTCACGTGTTCCCCGCGCGAGTGGGGATGAACCGGAGATGTCGGTTTTAATGCGCGTCGTCACCGTGTGTTCCCCGCGCGAGTGGGGATGAACCGCAGGGGTCGAGGTATCCGAGCCGGACCAATCCGTGTTCCCCGCGCGAGTGGGGATGAACCGCTGGTAGTCGCTGGCGAGATCCCGAAGGTTAGGTGTTCCCCGCGCGAGTGGGGATGAACCGTTGTCTGTGATGAATACACATCCGATAGGAGTGTGTTCCCCGCGCGAGTGGGGATGAACCGGTCATTGATTTTGCAGGTGCCACGTGGGAATTGTGTTCCCCGCGCGAGTGGGGATGAACCGTCACAGATGTAGATGGTTTGTGAGGCGGTGAGGTGTTCCCCGCGCGAGTGGGGATGAACCGCCAGACAGGAAATCTCTAGTGGATTCACTGTCGTGTTCCCCGCGCGAGTGGGGATGAACCGTACCTCCTTCTTGCCCGGAACGTCCACGCCACGGTGTTCCCCGCGCGAGTGGGGATGAACCGCAATTTCAGGATACGGAACCTTAATCAAGCGAGTGTTCCCCGCGCGAGTGGGGATGAACCGACGGGGGCGCCGCCGCGAATATCGCGACGCTCGTGTTCCCCGCGCGAGTGGGGATGAACCGCGGCATGTGGGAGTTGAACGCCCGCCGATTCGCGTGTTCCCCGCGCGAGTGGGGATGAACCGGCTACGTCCGGGTTCCGATCTATTGCGTATCAGTGTTCCCCGCGCGAGTGGGGATGAACCGAAATAGCATGTTCTCTCTCGCCACAGCAGAAAGTGTTCCCCGCGCGAGTGGGGATGAACCGCCATAGAAAAAGAGACCGGGAAACCGCTGGACGTGTTCCCCGCGCGAGTGGGGATGAACCGAATTTGTAGGACTTCGGGTTGACGTTGAGCACGTGTTCCCCGCGCGAGTGGGGATGAACCGATGACGGAGGGCCATTTGAATATCCCGTATATGTGTTCCCCGCGCGAGTGGGGATGAACCGGAAACGGTTCTTCCGCGTACCCCTTCGCCTTTGTGTTCCCCGCGCGAGTGGGGATGAACCGGGCGAGACGGAATCGGAACCGTCGTCCGTGGTGTGTTCCCCGCGCGAGTGGGGATGAACCGAGCGGGACGCATGGGGTTGCGGCTGGCAGCATGTGTTCCCCGCGCGAGTGGGGATGAACCGAACTGATGCGCGTGCCGACTTCTGATCTCGTGCGTGTTCCCCGCGCGAGTGGGGATGAACCGCGCGAATGCGGTACTGTGCAAATGGGTGCCTGTGTGTTCCCCGCGCGAGTGGGGATGAACCGGAAGAGCAGTTTCTCTCTGAGGGCGATGCTGTGTGTTCCCCGCGCGAGTGGGGATGAACCGCAACTTCGCCGGATCCTCGTCTTGGGTGACGCGTGTTCCCCGCGCGAGTGGGGATGAACCGACCGGTAGGGCCTGCTCCGGAGCCCACCGTTTGTGTTCCCCGCGCGAGTGGGGATGAACCGGCTAGCCGTAAATGAGTTGACATACGGGGTGTGTGTGCCCCGCGCGAGTGGGGATGAACCGCCCCCAGAAGAGCCGCGTCTGTGGCGCGAAGAGTGTTCCCCGCGCGAGTGGGGATGAACCGAGTCCTTTCGGGTTGTTGGTTATACAGGAATCGTGTTCCCCGCGCGAGTGGGGATGAACCG

>NC_014355|1|1|1475361-1477101|PILER-CR
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGGATACCCAGATGGCGAGAACACTACTCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGATGTCGGTTTTAATGCGCGTCGTCACCGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAGGGGTCGAGGTATCCGAGCCGGACCAATCC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CTGGTAGTCGCTGGCGAGATCCCGAAGGTTAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TTGTCTGTGATGAATACACATCCGATAGGAGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GTCATTGATTTTGCAGGTGCCACGTGGGAATT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TCACAGATGTAGATGGTTTGTGAGGCGGTGAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCAGACAGGAAATCTCTAGTGGATTCACTGTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TACCTCCTTCTTGCCCGGAACGTCCACGCCACG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAATTTCAGGATACGGAACCTTAATCAAGCGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACGGGGGCGCCGCCGCGAATATCGCGACGCTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGGCATGTGGGAGTTGAACGCCCGCCGATTCGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTACGTCCGGGTTCCGATCTATTGCGTATCA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AAATAGCATGTTCTCTCTCGCCACAGCAGAAA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCATAGAAAAAGAGACCGGGAAACCGCTGGAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AATTTGTAGGACTTCGGGTTGACGTTGAGCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ATGACGGAGGGCCATTTGAATATCCCGTATAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAACGGTTCTTCCGCGTACCCCTTCGCCTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GGCGAGACGGAATCGGAACCGTCGTCCGTGGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGCGGGACGCATGGGGTTGCGGCTGGCAGCAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AACTGATGCGCGTGCCGACTTCTGATCTCGTGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGCGAATGCGGTACTGTGCAAATGGGTGCCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAGAGCAGTTTCTCTCTGAGGGCGATGCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAACTTCGCCGGATCCTCGTCTTGGGTGACGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACCGGTAGGGCCTGCTCCGGAGCCCACCGTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTAGCCGTAAATGAGTTGACATACGGGGTGT
GTGTGCCCCGCGCGAGTGGGGATGAACCG	CCCCCAGAAGAGCCGCGTCTGTGGCGCGAAGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGTCCTTTCGGGTTGTTGGTTATACAGGAATC
GTGTTCCCCGCGCGAGTGGGGATGAACCG

>NC_014355|1|1|1475361-1477101|CRISPRCasFinder
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGGATACCCAGATGGCGAGAACACTACTCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGATGTCGGTTTTAATGCGCGTCGTCACCGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAGGGGTCGAGGTATCCGAGCCGGACCAATCC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CTGGTAGTCGCTGGCGAGATCCCGAAGGTTAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TTGTCTGTGATGAATACACATCCGATAGGAGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GTCATTGATTTTGCAGGTGCCACGTGGGAATT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TCACAGATGTAGATGGTTTGTGAGGCGGTGAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCAGACAGGAAATCTCTAGTGGATTCACTGTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TACCTCCTTCTTGCCCGGAACGTCCACGCCACG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAATTTCAGGATACGGAACCTTAATCAAGCGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACGGGGGCGCCGCCGCGAATATCGCGACGCTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGGCATGTGGGAGTTGAACGCCCGCCGATTCGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTACGTCCGGGTTCCGATCTATTGCGTATCA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AAATAGCATGTTCTCTCTCGCCACAGCAGAAA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCATAGAAAAAGAGACCGGGAAACCGCTGGAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AATTTGTAGGACTTCGGGTTGACGTTGAGCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ATGACGGAGGGCCATTTGAATATCCCGTATAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAACGGTTCTTCCGCGTACCCCTTCGCCTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GGCGAGACGGAATCGGAACCGTCGTCCGTGGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGCGGGACGCATGGGGTTGCGGCTGGCAGCAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AACTGATGCGCGTGCCGACTTCTGATCTCGTGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGCGAATGCGGTACTGTGCAAATGGGTGCCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAGAGCAGTTTCTCTCTGAGGGCGATGCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAACTTCGCCGGATCCTCGTCTTGGGTGACGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACCGGTAGGGCCTGCTCCGGAGCCCACCGTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTAGCCGTAAATGAGTTGACATACGGGGTGT
GTGTGCCCCGCGCGAGTGGGGATGAACCG	CCCCCAGAAGAGCCGCGTCTGTGGCGCGAAGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGTCCTTTCGGGTTGTTGGTTATACAGGAATC
GTGTTCCCCGCGCGAGTGGGGATGAACCG

>NC_014355|1|1|1475361-1477101|CRT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGGATACCCAGATGGCGAGAACACTACTCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAGATGTCGGTTTTAATGCGCGTCGTCACCGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAGGGGTCGAGGTATCCGAGCCGGACCAATCC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CTGGTAGTCGCTGGCGAGATCCCGAAGGTTAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TTGTCTGTGATGAATACACATCCGATAGGAGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GTCATTGATTTTGCAGGTGCCACGTGGGAATT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TCACAGATGTAGATGGTTTGTGAGGCGGTGAG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCAGACAGGAAATCTCTAGTGGATTCACTGTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	TACCTCCTTCTTGCCCGGAACGTCCACGCCACG
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAATTTCAGGATACGGAACCTTAATCAAGCGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACGGGGGCGCCGCCGCGAATATCGCGACGCTC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGGCATGTGGGAGTTGAACGCCCGCCGATTCGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTACGTCCGGGTTCCGATCTATTGCGTATCA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AAATAGCATGTTCTCTCTCGCCACAGCAGAAA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CCATAGAAAAAGAGACCGGGAAACCGCTGGAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AATTTGTAGGACTTCGGGTTGACGTTGAGCAC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ATGACGGAGGGCCATTTGAATATCCCGTATAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAACGGTTCTTCCGCGTACCCCTTCGCCTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GGCGAGACGGAATCGGAACCGTCGTCCGTGGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGCGGGACGCATGGGGTTGCGGCTGGCAGCAT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AACTGATGCGCGTGCCGACTTCTGATCTCGTGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CGCGAATGCGGTACTGTGCAAATGGGTGCCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GAAGAGCAGTTTCTCTCTGAGGGCGATGCTGT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	CAACTTCGCCGGATCCTCGTCTTGGGTGACGC
GTGTTCCCCGCGCGAGTGGGGATGAACCG	ACCGGTAGGGCCTGCTCCGGAGCCCACCGTTT
GTGTTCCCCGCGCGAGTGGGGATGAACCG	GCTAGCCGTAAATGAGTTGACATACGGGGTGT
GTGTGCCCCGCGCGAGTGGGGATGAACCG	CCCCCAGAAGAGCCGCGTCTGTGGCGCGAAGA
GTGTTCCCCGCGCGAGTGGGGATGAACCG	AGTCCTTTCGGGTTGTTGGTTATACAGGAATC
GTGTTCCCCGCGCGAGTGGGGATGAACCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_014355.1\|WP_013248112.1\|1474968_1475283_+\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	pfam09707_cas2_CAS-I-E	gnl\|CDD\|236930
NC_014355.1\|WP_083817322.1\|1473221_1474043_+\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09727_cas6e_CAS-I-E	gnl\|CDD\|215025
NC_014355.1\|WP_041186456.1\|1485659_1485839_+\|hypothetical-protein	unknown	unknown	unknown
NC_014355.1\|WP_013248109.1\|1472533_1473334_+\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|273842
NC_014355.1\|WP_083817324.1\|1480470_1481655_+\|TIM44-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|226830
NC_014355.1\|WP_041186455.1\|1485048_1485369_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238934
NC_014355.1\|WP_013248106.1\|1469179_1470742_+\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09729_cas8e_CAS-I-E	gnl\|CDD\|378189
NC_014355.1\|WP_013248107.1\|1470760_1471306_+\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NC_014355.1\|WP_013248122.1\|1483606_1485052_+\|HAMP-domain-containing-protein	unknown	unknown	gnl\|CDD\|273593
NC_014355.1\|WP_013248111.1\|1474067_1474988_+\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_014355.1\|WP_013248113.1\|1477936_1478137_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|234687
NC_014355.1\|WP_013248108.1\|1471337_1472534_+\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|378153
NC_014355.1\|WP_083817323.1\|1478630_1478888_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197775
NC_014355.1\|WP_041186452.1\|1466106_1466367_+\|hypothetical-protein	unknown	unknown	unknown
NC_014355.1\|WP_013248103.1\|1465790_1466075_+\|hypothetical-protein	unknown	unknown	unknown
NC_014355.1\|WP_013248120.1\|1482023_1482689_+\|glycosyltransferase	unknown	unknown	gnl\|CDD\|340832
NC_014355.1\|WP_013248114.1\|1478224_1478419_-\|type-II-toxin-antitoxin-system-HicB-family-antitoxin	unknown	unknown	gnl\|CDD\|224514
NC_014355.1\|WP_013248121.1\|1482926_1483610_+\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|223816
NC_014355.1\|WP_013248105.1\|1466466_1469196_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|182031
NC_014355.1\|WP_013248116.1\|1478779_1479985_-\|type-II-toxin-antitoxin-system-HipA-family-toxin	unknown	unknown	gnl\|CDD\|341492

Protein	Function_ID	Function_description	E-value
NC_014355.1\|WP_013248112.1\|1474968_1475283_+\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|236930	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional.	6.20003e-59
NC_014355.1\|WP_083817322.1\|1473221_1474043_+\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|215025	smart01101, CRISPR_assoc, This domain forms an anti-parallel beta strand structure with flanking alpha helical regions.	4.06667e-51
NC_014355.1\|WP_083817324.1\|1480470_1481655_+\|TIM44-like-domain-containing-protein	gnl\|CDD\|226830	COG4395, COG4395, Uncharacterized protein conserved in bacteria [Function unknown].	3.83253e-28
NC_014355.1\|WP_041186455.1\|1485048_1485369_-\|hypothetical-protein	gnl\|CDD\|238934	cd01974, Nitrogenase_MoFe_beta, Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.	0.00292837
NC_014355.1\|WP_013248106.1\|1469179_1470742_+\|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.	2.05769e-114
NC_014355.1\|WP_013248107.1\|1470760_1471306_+\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	3.21169e-23
NC_014355.1\|WP_013248122.1\|1483606_1485052_+\|HAMP-domain-containing-protein	gnl\|CDD\|273593	TIGR01386, Probable_sensor_protein_PcoS, heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (pfam00512) and a domain found in bacterial signal proteins (pfam00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.	1.35505e-67
NC_014355.1\|WP_013248111.1\|1474067_1474988_+\|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.	2.14031e-149
NC_014355.1\|WP_013248113.1\|1477936_1478137_+\|hypothetical-protein	gnl\|CDD\|234687	PRK00208, thiG, thiazole synthase; Reviewed.	0.00510142
NC_014355.1\|WP_013248108.1\|1471337_1472534_+\|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.	2.57234e-108
NC_014355.1\|WP_083817323.1\|1478630_1478888_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|197775	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins.	2.7448e-08
NC_014355.1\|WP_013248109.1\|1472533_1473334_+\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|273842	TIGR01868, hypothetical_protein, CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.	3.41942e-37
NC_014355.1\|WP_013248120.1\|1482023_1482689_+\|glycosyltransferase	gnl\|CDD\|340832	cd03802, GT4_AviGT4-like, UDP-Glc:tetrahydrobiopterin alpha-glucosyltransferase and similar proteins. This family is most closely related to the GT4 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant that accumulated a novel avilamycin derivative lacking the terminal eurekanate residue.	3.04387e-20
NC_014355.1\|WP_013248114.1\|1478224_1478419_-\|type-II-toxin-antitoxin-system-HicB-family-antitoxin	gnl\|CDD\|224514	COG1598, COG1598, Predicted nuclease of the RNAse H fold, HicB family [General function prediction only].	1.55431e-14
NC_014355.1\|WP_013248121.1\|1482926_1483610_+\|response-regulator-transcription-factor	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	5.73658e-89
NC_014355.1\|WP_013248105.1\|1466466_1469196_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	2.059e-132
NC_014355.1\|WP_013248116.1\|1478779_1479985_-\|type-II-toxin-antitoxin-system-HipA-family-toxin	gnl\|CDD\|341492	cd17793, HipA, type II toxin-antitoxin sytem toxin HipA and similar proteins. This family contains type II toxin-antitoxin (TA) system HipA family toxins similar to Escherichia coli and Shewanella oneidensis HipA, which is a serine/threonine-protein kinase that phosphorylates Glu-tRNA-ligase (GltX), preventing it from being charged, leading to an increase in uncharged tRNA(Glu). This induces amino acid starvation and the stringent response via RelA/SpoT and increased (p)ppGpp levels, which inhibits replication, transcription, translation and cell wall synthesis, reducing growth and leading to persistence and multidrug resistance. HipA is the toxin component of the HipA-HipB TA module that is a major factor in persistence and bioflim formation; its toxic effect is neutralized by its cognate antitoxin HipB. HipA, with HipB, acts as a a corepressor for transcription of the hipBA promoter. Structures of HipAB:DNA complexes from both Escherichia coli and Shewanella oneidensis reveal distinct complex assembly.	1.35933e-61

>NC_014355.1|WP_013248112.1|1474968_1475283_+|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MLVIVLENAPPRLRGRLAVWLLEIRAGVYVGNYSVKVREHIWTQVEAGIGEGNAVMAWRCNNEAGFDFVTLGANRRIPVELDGAKLVSFLPETGGEPQESQPSS
>NC_014355.1|WP_013248111.1|1474067_1474988_+|type-I-E-CRISPR-associated-endonuclease-Cas1
MADILPPLKPIPIKERLSVLYIEYGHLDVLDGAFVVVDKNGVRTHIPVGGVVCLMLEPGTRVSHAACALAARVGTLLVWIGEAGVRLYSAGQPGGARADRLLYQAKLALDDELRLKVVRKMYALRFGEEPPQRRSVEQLRGIEGARVREMYKRVAAQAGVQWKARNYDVEDWDQGDIANRCLSAATACLYGVTEAAVLAAGYAPAIGFIHTGKPLSFVYDVADIYKFETVVPLAFRIAAKNPPNAEQQVRLACRDKFRETKLLERIIPGIEEMLAAGEIPRPTPFEEQVLPAIPNQDNIGDAGHRT
>NC_014355.1|WP_083817322.1|1473221_1474043_+|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MPKLVYPRNRPSPDETPQPLAGDGSSQHEKNTKLISGRKVSMEMSANWLSRISLRGDVGCKQLVGMGELDLYGQHRALWKLFTVAPEDRTERAEFLFRAERKGSVPVFYVLSRQQPIDRAGLWHIESKPYRPVLNEGDRLAFKLRVNPVVTRRTEVNKRRKRHDVVMDAKCQLNWNALPTDQRPALADIVHKAGVTWLQARAERLGCSFLEDSIRVDGYQTWRQSGLKGIELSTLDFDGILAITDPHRFSAALVEGVGPAKGFGCGLLLVRRL
>NC_014355.1|WP_013248109.1|1472533_1473334_+|type-I-E-CRISPR-associated-protein-Cas5/CasD
MHDYLVFQLYGPIAAWGDIAVGETRPSTMTPSKSAVVGLVAAALGLRRPDTAQTEAQRSEWELDHLALADGYGMAIKVDAVGVPLTDYHTVQVPSSGTGRNRQFFATRRDELNRGPKSDLNTILSRREYRQDVYYAIALWARSQAPHTLRELRQALLEPRFVLYLGRKSCPLGLPLHPEIKQGETIEAVLANLSIENVLSQLVEAGGGSGRRKSGQGIQQDLPLLVWDSDAETGLSPEQTITRRDASTSRRRWQFATREEHQAYLR
>NC_014355.1|WP_013248108.1|1471337_1472534_+|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFLQLHLLTSYPPACLNRDDLNRPKTAMMGGVPRLRVSSQSLKRTWRISEVFHEKVNEQMGIRSKELGLRIKDALLTGVALTDLLNLGVSRTESDGKVSEKNASEWAWMIAGEFVDKKSKGGDGETEDEESKDKGKKKTKKSNVSKETLKSEQIVFYSQKEIEALVMLIQSLRESGKAPSAEQLSAIKAKEAQGTADLALFGRMLASSPDFNVEAACQVAHAITVHRAAVEDDFFTAVDDLNTHEENAGSAHMGEQGFGAGLFYSYVCIDCDLLRENLGGDAGLTESAIRALVEAAATVAPTGKQNSFANRAWAPYVLAEKGNRQPRGLSLAFMKPVNEYGEGMLVNAVSALDTMRTNLDKVYHNGQPLPSKSINALKGEGDFQVLLNFAAGNGGV
>NC_014355.1|WP_013248107.1|1470760_1471306_+|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSHTTKPDNPFPQGKSDHPSFNVLKMWWQALESNRGERAALRRAASLTEVMLSPAFHRLLHSLQREGYGVAEYRYPKLAAIAGLAARVKTETSETLATRMGNPKSGGDKAAMSDLRVRRVLACDEVEELYTLLRRALALLGDQANLSDLAATLWHWSPMDEKRPNDPRRRMAYDYYAATPL
>NC_014355.1|WP_013248106.1|1469179_1470742_+|type-I-E-CRISPR-associated-protein-Cse1/CasA
MNLIYESWIPVKRQDGTREKVAPWRITDFTEGKSPIVAIASPRPDFDGALVQFLIGLLQTTCTPSESGWWDWREKPPSPKTLCERFATVERAFEIQGKTAFMQDWTSSDLSKELNVSDLLIEAPGEKTQKDNTDHFIKRGRVEQMCLLCAATALFTLQTNAPSGGQGHRTSLRGGGPLCTLVLGDTLWETCWRNVLMDARYYAAADPDKFGEADRFPWLARTRTSEPASPTKTTGPVDVHPDQQFWGMPRRIRLQIRDLEKPSCCDLCGAEARKVCRHAVTKNYGVNYEGFAHPLSPHYVKDGVPNPVHPQPGGVGYRHWLGLVENSMDGNLERRPAKVIEQFRSVVREDARLWAFGFDMDNMKARCWYDAIMPILAVPSEMHEVFKGQVERLVRGASWVAQILRWRIKDVLLAQDDNRGDLSFIQNHFWASTESTFYEHIRHLRDILSMSKGEVAVLESWHAALRVAAFSVFDHYAQVGDFDGADPRRIAKARNDLKKALNDKKLRQLLGLSQPVHQKS
>NC_014355.1|WP_013248105.1|1466466_1469196_+|CRISPR-associated-helicase/endonuclease-Cas3
MQADYFHYWGKADEKYVGATTWHPLVYHSLDVAACGHALLTVQPSWLRTMQRLSGLRSEILQQWIIFLLAIHDAGKFSDGFQFLRPDLWKILHGRTDKARYGERHDTLGYELTLANLSQWLRQPDLAKRSGQCLQPWLASVTGHHGKPPKNLSKGDSAMLLRDHYPVHVRNDVKQFILETQNLLMSQDFQWTALLEGQVERYRQASWMLSGLAVTADWLGSNTRWFPYHKPDVDITEYWNTIALPGAQKAIVESGLGSTTAHFPGIGKLFPHISSSTPLQAWAETVQMHAGPQLFVLEDLTGSGKTEAALTLAARLMAAGEGQGIYLGLPTMATADAMFDRVKRGEGWKRFFADEHAQLALAHSADRLKLRLEEANRRDHGYGTTEEQSASQSCTAWLADNRKKALLADFGVGTLDQALLAVLPRRHQSIRLLGLADKVLIVDEVHACDAYMGELLSRLLQFHAALGGSVILLSATLPLAQRARYIKAFAEGAEITAARPKETAYPLACQFSVNGFVEQPLAPRSECVRRVSVQALHEEPKVLEQLHDALIQGRCVVWVRNTVADAVESWKTWNSTYPEYPATVFHARFALVDRLRIGKEIDTAFGPKSTAAARSGKLVIATQVIEQSLDVDFDDMVTDLAPIDLIVQRAGRLQRHLRGADGNRLAEPGASDGRGGARLGVFMPVPVEDAGKGWMRDLLPKGGKVYPDHGKLWLTARWLMQHEGFDLPRQARDMLETVYDEAAFDGLPEGLKDVALKVDGVCRADQGIARSNVLAFDEGYSSTSFQWQDEDEAPTRLGEKTVRVRLGCLVDGILRPWAQTTTGMEWALSELSIPCRLIAKESERMAAWLATARMVMPDEGRYVVIVALERYGEAWCGYARNQEDQEVRVTYSSLVGLAVDKGVSDESDL
>NC_014355.1|WP_041186452.1|1466106_1466367_+|hypothetical-protein
MADVDEVGRGESNSRIMNRRNLCKALIALALGGLFRPVKHAVAEPTAISASGNHPASGIQRNEQKLVVCILRRQAPGTPETFLKNM
>NC_014355.1|WP_013248103.1|1465790_1466075_+|hypothetical-protein
MAWNEETQIRCRFSFKCPRLWHRLQPTAEEGVRHCHECDRDVYLALSEADVRRFSEQGRCIAVPVAQPDGEAQSDEPCYVVGRVMPAYDGEEEE
>NC_014355.1|WP_013248113.1|1477936_1478137_+|hypothetical-protein
MITLHPEILVKDGKKQFVVLPYEEFVLLKERLEEMEDLLQLRKAEKAEGRKPTVPLARAKRQLGLK
>NC_014355.1|WP_013248114.1|1478224_1478419_-|type-II-toxin-antitoxin-system-HicB-family-antitoxin
MEYLIVIEPDFEAGGYVVSCPTLKGCVSQGKTEEEALENIEDAIKTYLQSIEDLKRLKKLRASL
>NC_014355.1|WP_083817323.1|1478630_1478888_-|helix-turn-helix-transcriptional-regulator
MHNGPRGIAGCHQYLHGKKMERNLRLDWQSLVEEAVKRRKEQKLTQKTLAVLAGVSGPTVNAFEQQRTSITLESALKIFRCLGMA
>NC_014355.1|WP_013248116.1|1478779_1479985_-|type-II-toxin-antitoxin-system-HipA-family-toxin
MANLLWGNVYYQDRFAGVLRQEPGERISFTYDEHYLAGHHPSIAHTLPLRTDTIISQSGLPPFFDNLVAEGWLEEAQTRLLGKRRVSRFELLLAFGQDCAGAVSIIDPDPERRDAARPDDPMDIAVMSGRASLSGIQPKLALVRRDGQFRPARTDELSTHIAKFPSSRHGDLTANEYLTTKALQALLPGDDIVDLRMGHVAGFEEPALIITRFDRTDDGQRIHFEEFNQLLGYPSHAKYEGSHKSMPDFIRQTPGCLPAEIYRLYLRILAGVLLGNTDMHLKNFAMFHTEAGLRLTPAYDAVSATLYGYNTIALSIGGSAHIPIGEMKPRTLIRLGEEFGLSKQAIAMAAGQLEKRQTAARNAIAECTTGPAELRDAISTFMGKRWNGTFALIGKALSKKP
>NC_014355.1|WP_083817324.1|1480470_1481655_+|TIM44-like-domain-containing-protein
MARMCRAILQETSHHAIRPGYRMNLRFSSSIAGRMRGRSRFILSSRERIPSLNTTKVMAACLVLSLIGVPTVSFAKARGGSGGGFSSGSRGSSSSGSMGSRGSRTYQDNGAKPIEQSTTARPSTAPPSSVASGPAARPAPAAQPSWIQRNPLLAGIAGGLAGSWIGHMLFGATDSSARTNEAGEQVGDNGQGGASGPSGMFMLLLLMGAGALFFYLRSRKPAVAPDFSGITRSRAVSGSLLADSPVSTLRTATIDSEITSADKAAFQQSLTDIQTAWGQQDLSALRRLVTPEMLEYFSTGLAELTSQDQANRVEDVVLLQAEVRESWVENTVQYATVSLHWSARDYTVSLSKAPGDAGYLIEGSAEKPIETTEVWTFMRYQHGKWLLSAIQQVA
>NC_014355.1|WP_013248120.1|1482023_1482689_+|glycosyltransferase
MRIAHISPFLEQVSSESQDPQGRTIFHLTKHLTRLGHDVRVFASGDSRTACELVPVAPLAMRSYPAPKRHLAEALAMLALEKALATLPSFDLIHLHSGLSCLPLMRRSPIPIVATVYEALDAPEVIGVYREFKELALIATCAEQLTQVPDLNWQAVIPCVDLLRWQQEPQAVEKIVRAHETVYEWSTIGMGLPERVAPHLRFVTSAKANAAQERSIVASPY
>NC_014355.1|WP_013248121.1|1482926_1483610_+|response-regulator-transcription-factor
MRILLVEDDADLAQFIRKGLKEERYAVDVASNGEQGFELGIANPYDLIILDIMLPVLDGLSLCRRLRSTGVTAPVLLLTARDTVQDKVSGLDLGADDYLTKPFAFAELLARARALLRRGGPQLQARLTAADLELDPATHRVCRGGNEIALTNKEYALLEFLLRNKNRVLTRTAIIEHVWDISYDPMTNIVDAHIRSLRAKMDRDFSPALITTVRGAGYMLEDEEAGR
>NC_014355.1|WP_013248122.1|1483606_1485052_+|HAMP-domain-containing-protein
MNSLGRLIRRTALILMGGLLLGFSALIYVGGDTLLSRYVDGRLLELAETLGRIIEQRPDVIRGAADELVVLGEKGRSQEEQHELREAAHSVRILSIDGQLLWKGSDVVPRPPVSASLLEQVKQGQTVFDMVQLREGSPVRRVSIPVPRRGQVRYMLQAEESLHFSKETLKGLAILLALGSGLVILVAWAGSAWIARTVLTPIGLLSRRAETMSEADLGERLSLDSPFQEFHRLTHTFNAMMDRFQKSCESQRRFVDYAAHEMQTPLTVLQGNLEVTLQKARSTEEYREALIGNLEQVEKLIALARSLLTLTKVTGDRPPLHLAPVELEPLLQELIIELKLLADDRRISLALEVVPVPTISADAQWLKQALINLLDNSLKYTPPGGSVTVRLRRSDGSLEIAVRDTGPGIEAEHVPFLFDRFYRADKARARESGGTGLGLAIVKGIVEAHGGTVAVDTQPGKGSEFTIRLPLGRAPEGHPSN
>NC_014355.1|WP_041186455.1|1485048_1485369_-|hypothetical-protein
MARSRRPELEKDNPTAPQLYVGPRRRSALSRRAAASQTPAPNGMAAAMHTLMTAAEEFVNGVPYVQELDKERNALLDAITQAQTLLSAGDVAVTRPAKGRKKRQTG
>NC_014355.1|WP_041186456.1|1485659_1485839_+|hypothetical-protein
MRKQLERPVHRSKSRRADDGKQEIWPLSAREFMKLPVSGLMSAGQQLRFTPFTPSDQAA

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_014355_1	1.11\|1476001\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476001-1476032	32	NZ_CP022999	Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-A, complete sequence	126919-126950	7	0.781
NC_014355_1	1.23\|1476736\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476736-1476767	32	NZ_CP014361	Methylomonas sp. DH-1 plasmid, complete sequence	36376-36407	7	0.781
NC_014355_1	1.24\|1476797\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476797-1476828	32	NZ_CP046574	Rhodococcus sp. WAY2 plasmid pRWAY02, complete sequence	379918-379949	8	0.75
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021823	Sinorhizobium meliloti strain KH46 plasmid psymB, complete sequence	1116019-1116050	8	0.75
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NC_003078	Sinorhizobium meliloti 1021 plasmid pSymB, complete sequence	1427881-1427912	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NC_017326	Sinorhizobium meliloti SM11 plasmid pSmeSM11d, complete sequence	312399-312430	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021799	Sinorhizobium meliloti strain USDA1106 plasmid psymB, complete sequence	1494102-1494133	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NC_017323	Sinorhizobium meliloti BL225C plasmid pSINMEB02, complete sequence	1549902-1549933	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NC_018701	Sinorhizobium meliloti Rm41 plasmid pSYMB, complete sequence	307644-307675	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021820	Sinorhizobium meliloti strain M162 plasmid psymB, complete sequence	654273-654304	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021814	Sinorhizobium meliloti strain M270 plasmid psymB, complete sequence	189756-189787	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021795	Sinorhizobium meliloti strain USDA1157 plasmid psymB, complete sequence	654782-654813	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021810	Sinorhizobium meliloti strain Rm41 plasmid psymB, complete sequence	1096438-1096469	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021806	Sinorhizobium meliloti strain T073 plasmid psymB, complete sequence	707152-707183	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP021218	Sinorhizobium meliloti RU11/001 plasmid pSymB, complete sequence	461567-461598	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NZ_CP026527	Sinorhizobium meliloti strain AK21 plasmid pSymB, complete sequence	312158-312189	9	0.719
NC_014355_1	1.27\|1476980\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476980-1477011	32	NC_020560	Sinorhizobium meliloti 2011 plasmid pSymB, complete sequence	1427886-1427917	9	0.719
NC_014355_1	1.3\|1475512\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1475512-1475543	32	MN103543	Pseudomonas phage vB_PaeM_PS119XW, complete genome	224409-224440	10	0.688
NC_014355_1	1.3\|1475512\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1475512-1475543	32	MK599315	Pseudomonas phage PA1C, complete genome	224366-224397	10	0.688
NC_014355_1	1.11\|1476001\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476001-1476032	32	NZ_CP017076	Novosphingobium resinovorum strain SA1 plasmid pSA1, complete sequence	1358312-1358343	10	0.688
NC_014355_1	1.15\|1476246\|32\|NC_014355\|PILER-CR,CRISPRCasFinder,CRT	1476246-1476277	32	NC_015162	Deinococcus proteolyticus MRP plasmid pDEIPR02, complete sequence	132584-132615	11	0.656

1. spacer 1.11|1476001|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP022999 (Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-A, complete sequence) position: , mismatch: 7, identity: 0.781

acgggggcgccgccgcgaatatcgcgacgctc	CRISPR spacer
gcagcggcgccaccgcgaagatcgcgacggac	Protospacer
.*.* ******.******* *********  *

2. spacer 1.23|1476736|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP014361 (Methylomonas sp. DH-1 plasmid, complete sequence) position: , mismatch: 7, identity: 0.781

gaagagcagtttctctctgagggcgatgctgt	CRISPR spacer
gcactgcaatttctctctgaggtcgatgtggt	Protospacer
* *  ***.************* *****. **

3. spacer 1.24|1476797|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046574 (Rhodococcus sp. WAY2 plasmid pRWAY02, complete sequence) position: , mismatch: 8, identity: 0.75

caacttcgccggatcctcgtcttgggtgacgc	CRISPR spacer
cacgcataccggatgctcgtcatgggtgacgc	Protospacer
**  . ..****** ****** **********

4. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021823 (Sinorhizobium meliloti strain KH46 plasmid psymB, complete sequence) position: , mismatch: 8, identity: 0.75

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcggggaaa	Protospacer
  .**** ** *************** *.*.*

5. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_003078 (Sinorhizobium meliloti 1021 plasmid pSymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

6. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_017326 (Sinorhizobium meliloti SM11 plasmid pSmeSM11d, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

7. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021799 (Sinorhizobium meliloti strain USDA1106 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

8. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_017323 (Sinorhizobium meliloti BL225C plasmid pSINMEB02, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

9. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_018701 (Sinorhizobium meliloti Rm41 plasmid pSYMB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

10. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021820 (Sinorhizobium meliloti strain M162 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

11. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021814 (Sinorhizobium meliloti strain M270 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

12. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021795 (Sinorhizobium meliloti strain USDA1157 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

13. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021810 (Sinorhizobium meliloti strain Rm41 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

14. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021806 (Sinorhizobium meliloti strain T073 plasmid psymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

15. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021218 (Sinorhizobium meliloti RU11/001 plasmid pSymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

16. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP026527 (Sinorhizobium meliloti strain AK21 plasmid pSymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

17. spacer 1.27|1476980|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_020560 (Sinorhizobium meliloti 2011 plasmid pSymB, complete sequence) position: , mismatch: 9, identity: 0.719

cccccagaagagccgcgtctgtggcgcgaaga	CRISPR spacer
gatccagcagcgccgcgtctgtggcgggggaa	Protospacer
  .**** ** *************** *...*

18. spacer 1.3|1475512|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to MN103543 (Pseudomonas phage vB_PaeM_PS119XW, complete genome) position: , mismatch: 10, identity: 0.688

caggggtcgaggtatccgagccggaccaatcc	CRISPR spacer
ggcagaaagaggtctccaagccggaccaatct	Protospacer
 . .*.  ***** ***.*************.

19. spacer 1.3|1475512|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to MK599315 (Pseudomonas phage PA1C, complete genome) position: , mismatch: 10, identity: 0.688

caggggtcgaggtatccgagccggaccaatcc	CRISPR spacer
ggcagaaagaggtctccaagccggaccaatct	Protospacer
 . .*.  ***** ***.*************.

20. spacer 1.11|1476001|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017076 (Novosphingobium resinovorum strain SA1 plasmid pSA1, complete sequence) position: , mismatch: 10, identity: 0.688

acgggggcgccgccgcgaatatcgcgacgctc	CRISPR spacer
ccggggtcgccgccgccaatatcgtattgtca	Protospacer
 ***** ********* *******.. .*..

21. spacer 1.15|1476246|32|NC_014355|PILER-CR,CRISPRCasFinder,CRT matches to NC_015162 (Deinococcus proteolyticus MRP plasmid pDEIPR02, complete sequence) position: , mismatch: 11, identity: 0.656

ccatagaaaaagagaccgggaaaccgctggac	CRISPR spacer
atgaagtaaaagaggccgggaaaccgcctctt	Protospacer
 .. ** *******.************.   .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

54468 : 59037

Acidithiobacillus_phage(83.33%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012213846.1\|54468_54804_-	YnfA family protein	A0A218MNG8	uncultured_virus	5.8e-27	56.2
WP_013246682.1\|54806_55214_-	Hg(II)-responsive transcriptional regulator	NA	NA	NA	NA
WP_012213848.1\|55256_55628_+	mercuric ion transporter MerT	NA	NA	NA	NA
WP_012213849.1\|55640_55925_+	mercury resistance system periplasmic binding protein MerP	NA	NA	NA	NA
WP_013246683.1\|55921_56143_+	hypothetical protein	NA	NA	NA	NA
WP_013246684.1\|56143_56620_-	hypothetical protein	K4I1C7	Acidithiobacillus_phage	4.3e-28	46.4
WP_013246685.1\|56616_56988_-	hypothetical protein	K4HZX2	Acidithiobacillus_phage	2.0e-41	67.5
WP_013246686.1\|56987_58376_-	recombinase family protein	K4ICM1	Acidithiobacillus_phage	6.4e-229	85.8
WP_013246687.1\|58372_58825_-	DUF2924 domain-containing protein	K4I3X1	Acidithiobacillus_phage	6.7e-63	81.0
WP_083817227.1\|58824_59037_-	hypothetical protein	K4HZ94	Acidithiobacillus_phage	2.9e-16	73.0

DBSCAN-SWA_2

62832 : 101950

Acidithiobacillus_phage(35.29%)

portal,tRNA,capsid,terminase,head,tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_013246693.1\|62832_63096_+	hypothetical protein	K4I3X3	Acidithiobacillus_phage	3.0e-23	59.8
WP_013246694.1\|63107_63590_+	hypothetical protein	K4HZ96	Acidithiobacillus_phage	1.7e-51	63.6
WP_013246695.1\|63586_64432_+	ATP-binding protein	K4HZX9	Acidithiobacillus_phage	8.9e-109	70.4
WP_013246696.1\|64437_65082_+	hypothetical protein	K4ICM8	Acidithiobacillus_phage	2.1e-73	65.9
WP_013246697.1\|65092_65947_+	hypothetical protein	I6S1R0	Salmonella_phage	1.2e-17	38.7
WP_013246698.1\|65943_66444_+	hypothetical protein	K4I3X7	Acidithiobacillus_phage	8.5e-67	73.6
WP_013246699.1\|66440_67178_+\|tRNA	isoleucyl-tRNA synthetase	K4HZA0	Acidithiobacillus_phage	9.5e-107	74.6
WP_013246700.1\|67174_67429_+	hypothetical protein	K4I1D6	Acidithiobacillus_phage	4.4e-19	64.0
WP_013246701.1\|67425_69717_+	hypothetical protein	K4HZY1	Acidithiobacillus_phage	9.3e-294	64.8
WP_013246702.1\|69844_70309_+	hypothetical protein	K4ICN3	Acidithiobacillus_phage	4.8e-56	69.8
WP_041186295.1\|70310_70514_+	hypothetical protein	NA	NA	NA	NA
WP_013246703.1\|70506_70935_+	hypothetical protein	NA	NA	NA	NA
WP_013246705.1\|71253_72663_+	site-specific DNA-methyltransferase	K4I3Y2	Acidithiobacillus_phage	3.2e-159	58.5
WP_013246706.1\|72659_73901_+	site-specific DNA-methyltransferase	A0A2H4JGF1	uncultured_Caudovirales_phage	1.2e-218	90.6
WP_013246707.1\|73860_74085_-	hypothetical protein	NA	NA	NA	NA
WP_013246708.1\|74084_74450_-	hypothetical protein	A0A2H4JI44	uncultured_Caudovirales_phage	4.5e-57	86.6
WP_013246709.1\|74547_75069_-	DUF3489 domain-containing protein	A0A2H4JE21	uncultured_Caudovirales_phage	9.2e-40	85.0
WP_013246710.1\|75163_75370_-	hypothetical protein	NA	NA	NA	NA
WP_013246711.1\|75489_76026_+	hypothetical protein	A0A2H4JCL4	uncultured_Caudovirales_phage	1.8e-78	86.0
WP_013246712.1\|76025_77984_+\|terminase	phage terminase large subunit family protein	A0A2H4JIC6	uncultured_Caudovirales_phage	0.0e+00	89.8
WP_013246713.1\|78002_78494_+	hypothetical protein	A0A0F6WCR7	Sinorhizobium_phage	1.9e-26	48.8
WP_013246714.1\|78493_78886_+	hypothetical protein	NA	NA	NA	NA
WP_013246715.1\|78885_79107_+	hypothetical protein	A0A2H4JCJ9	uncultured_Caudovirales_phage	3.1e-13	56.2
WP_013246716.1\|79106_80594_+\|portal	phage portal protein	A0A1B2LRR5	Wolbachia_phage	2.0e-148	56.2
WP_013246717.1\|80604_81819_+	S49 family peptidase	K4HZZ6	Acidithiobacillus_phage	3.9e-65	39.9
WP_013246718.1\|81820_82198_+\|head	head decoration protein	A0A1B2LRT0	Wolbachia_phage	1.0e-27	54.0
WP_013246719.1\|82200_83205_+\|capsid	major capsid protein	Q9JMM2	Wolbachia_phage	5.6e-142	71.4
WP_041186787.1\|83207_83486_+	hypothetical protein	NA	NA	NA	NA
WP_013246721.1\|83496_83922_+	hypothetical protein	F4YCS3	Synechococcus_phage	6.9e-09	30.9
WP_013246722.1\|83926_84130_+	hypothetical protein	NA	NA	NA	NA
WP_013246723.1\|84132_84885_+	hypothetical protein	A0A2D2W2E0	Stenotrophomonas_phage	6.0e-56	49.6
WP_013246724.1\|84884_85286_+	hypothetical protein	NA	NA	NA	NA
WP_013246725.1\|85474_86116_+	hypothetical protein	NA	NA	NA	NA
WP_013246726.1\|86115_88821_+\|tail	tail protein	A0A0U2BXT9	Paracoccus_phage	6.5e-20	30.9
WP_013246727.1\|88840_89899_+	hypothetical protein	NA	NA	NA	NA
WP_013246728.1\|89895_91470_+	hypothetical protein	NA	NA	NA	NA
WP_013246729.1\|91472_92261_+	DUF2163 domain-containing protein	A0A0S0MV27	Pseudomonas_phage	5.5e-28	33.1
WP_013246730.1\|92279_92507_+	hypothetical protein	A0A0K1LL31	Rhodobacter_phage	1.9e-10	63.6
WP_041186296.1\|92503_92710_+	hypothetical protein	A0A1P8VVG8	Erythrobacter_phage	6.0e-11	54.0
WP_013246731.1\|92709_94983_+\|tail	tail assembly protein	A0A1L2C8W7	Pseudomonas_phage	2.2e-133	38.5
WP_013246732.1\|94982_95579_+	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_013246733.1\|95582_95933_+	DUF2793 domain-containing protein	A0A1X9IAR6	Xanthomonas_phage	3.8e-37	62.9
WP_013246734.1\|95999_96308_+	hypothetical protein	K4I011	Acidithiobacillus_phage	4.2e-24	67.9
WP_013246735.1\|96304_96532_+	hypothetical protein	NA	NA	NA	NA
WP_013246736.1\|96528_97029_+	lysozyme	A0A1I9L2C4	Xanthomonas_phage	3.3e-18	37.2
WP_013246737.1\|97025_97523_+	hypothetical protein	A0A077K9R7	Ralstonia_phage	5.0e-27	54.5
WP_013246738.1\|97572_98430_-	hypothetical protein	NA	NA	NA	NA
WP_013246739.1\|98455_99025_-	hypothetical protein	NA	NA	NA	NA
WP_013246740.1\|99211_101950_-	DEAD/DEAH box helicase family protein	A0A2H4J643	uncultured_Caudovirales_phage	5.4e-22	23.7

DBSCAN-SWA_3

1880684 : 1925676

Enterobacteria_phage(33.33%)

plate,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_013248519.1\|1880684_1882025_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_013248520.1\|1882031_1882730_+	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_083817348.1\|1882696_1886356_+	type VI secretion system membrane subunit TssM	NA	NA	NA	NA
WP_013248522.1\|1886361_1887312_+	type VI secretion system-associated protein TagF	NA	NA	NA	NA
WP_013248523.1\|1887495_1888296_+	hypothetical protein	NA	NA	NA	NA
WP_013248524.1\|1888311_1889430_+	type VI secretion system protein TssA	NA	NA	NA	NA
WP_013248525.1\|1889453_1889987_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_013248526.1\|1889989_1891483_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_013248527.1\|1891973_1892429_+	type VI secretion system tube protein Hcp	NA	NA	NA	NA
WP_083817349.1\|1892617_1893430_+	lysozyme	A0A2I7S753	Vibrio_phage	2.6e-12	43.9
WP_083817350.1\|1893471_1893915_+	DUF1311 domain-containing protein	NA	NA	NA	NA
WP_013248530.1\|1893972_1894809_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_013248531.1\|1894808_1896623_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_013248532.1\|1896586_1897651_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_013248533.1\|1897675_1900405_+	type VI secretion system ATPase TssH	H6X3M6	Enterobacteria_phage	2.7e-82	30.1
WP_041186507.1\|1900451_1901123_+	hypothetical protein	NA	NA	NA	NA
WP_013248535.1\|1901359_1903612_+	type VI secretion system tip protein VgrG	A0A077K8Q4	Ralstonia_phage	1.1e-47	28.2
WP_049787281.1\|1903613_1904150_+	hypothetical protein	NA	NA	NA	NA
WP_049787282.1\|1904167_1905493_+	TIGR02270 family protein	NA	NA	NA	NA
WP_013248538.1\|1905480_1906605_+	DUF2169 domain-containing protein	NA	NA	NA	NA
WP_013248539.1\|1906604_1907642_+	hypothetical protein	NA	NA	NA	NA
WP_013248540.1\|1907644_1908652_+	DUF4150 domain-containing protein	NA	NA	NA	NA
WP_041186508.1\|1909089_1909446_+	hypothetical protein	NA	NA	NA	NA
WP_083817351.1\|1910174_1911167_+	OmpA family protein	NA	NA	NA	NA
WP_013248545.1\|1911482_1911665_+	hypothetical protein	NA	NA	NA	NA
WP_049787284.1\|1911811_1912033_-	type II toxin-antitoxin system HicA family toxin	NA	NA	NA	NA
WP_013248029.1\|1912070_1913408_+\|transposase	IS21 family transposase	A0A059NT83	Lactococcus_phage	1.8e-31	28.6
WP_013248030.1\|1913404_1914184_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	2.7e-67	52.0
WP_013248546.1\|1914285_1914516_-	hypothetical protein	NA	NA	NA	NA
WP_013248547.1\|1914599_1915835_+	TIGR02270 family protein	NA	NA	NA	NA
WP_013248548.1\|1915894_1916158_-	Txe/YoeB family addiction module toxin	NA	NA	NA	NA
WP_013248549.1\|1916154_1916397_-	type II toxin-antitoxin system Phd/YefM family antitoxin	NA	NA	NA	NA
WP_013248550.1\|1916733_1917432_+	hypothetical protein	NA	NA	NA	NA
WP_041186509.1\|1917541_1918036_+	hypothetical protein	NA	NA	NA	NA
WP_013248552.1\|1918205_1918844_+	hypothetical protein	NA	NA	NA	NA
WP_013248553.1\|1919173_1920565_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA
WP_013248554.1\|1920678_1922685_+	hypothetical protein	NA	NA	NA	NA
WP_013248555.1\|1922706_1924278_-	hypothetical protein	NA	NA	NA	NA
WP_085951612.1\|1924548_1925676_+\|transposase	IS3 family transposase	Q8W6R2	Burkholderia_virus	1.4e-16	27.5

DBSCAN-SWA_4

2035846 : 2051453

Leptospira_phage(25.0%)

integrase,transposase

attL 2029047:2029062|attR 2064730:2064745

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2029047:2029062	attL	NA	NA	NA	NA
WP_085951613.1\|2035846_2036972_+\|transposase	IS3 family transposase	Q8W6R2	Burkholderia_virus	7.7e-15	28.6
WP_013248666.1\|2038230_2038692_+	CBS domain-containing protein	NA	NA	NA	NA
WP_013248668.1\|2039183_2039801_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_049787289.1\|2039916_2040822_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_013248670.1\|2040803_2041271_+	hypothetical protein	NA	NA	NA	NA
WP_041186525.1\|2041301_2041685_+	hypothetical protein	NA	NA	NA	NA
WP_013248672.1\|2041735_2042296_+	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA
WP_013248673.1\|2042388_2043156_-	SDR family oxidoreductase	A0A0M4JSW6	Mollivirus	1.9e-09	27.7
WP_085951614.1\|2043507_2044613_-\|transposase	IS3 family transposase	S5WIU1	Leptospira_phage	1.9e-42	39.0
WP_085951615.1\|2044691_2045000_-\|transposase	transposase	S5WIU1	Leptospira_phage	4.6e-15	55.4
WP_013248679.1\|2045094_2046309_+\|transposase	transposase	NA	NA	NA	NA
WP_013248029.1\|2046068_2047406_+\|transposase	IS21 family transposase	A0A059NT83	Lactococcus_phage	1.8e-31	28.6
WP_013248680.1\|2047402_2048182_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	2.7e-67	52.0
WP_083817361.1\|2048786_2049497_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_013248683.1\|2049642_2049948_+	HigA family addiction module antidote protein	A0A2P1MXE5	Escherichia_phage	1.1e-05	38.0
WP_013248684.1\|2050028_2050391_+	hypothetical protein	NA	NA	NA	NA
WP_013248685.1\|2050393_2050750_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_083817362.1\|2050943_2051453_-\|integrase	tyrosine-type recombinase/integrase	F1C5B2	Cronobacter_phage	8.2e-09	44.9
2064730:2064745	attR	NA	NA	NA	NA

DBSCAN-SWA_5

2854523 : 2865526

Paramecium_bursaria_Chlorella_virus(14.29%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_013249442.1\|2854523_2856356_-	glutamine--fructose-6-phosphate transaminase (isomerizing)	Q84421	Paramecium_bursaria_Chlorella_virus	1.4e-119	42.8
WP_013249443.1\|2856365_2857985_-	UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase	A0A2K9L821	Tupanvirus	2.5e-19	31.4
WP_049787332.1\|2858036_2858711_-	DUF502 domain-containing protein	A0A2I7S9X1	Vibrio_phage	7.1e-16	28.4
WP_013249445.1\|2858842_2859568_+	dTMP kinase	M1PSC7	Streptococcus_phage	6.4e-39	44.3
WP_013249446.1\|2859554_2860586_+	DNA polymerase III subunit delta'	A0A1U9WR94	Streptococcus_virus	5.6e-12	26.7
WP_013249447.1\|2860779_2862771_+\|tRNA	methionine--tRNA ligase	A0A1V0SHR2	Klosneuvirus	3.3e-93	38.7
WP_013249448.1\|2862767_2863634_+	hypothetical protein	NA	NA	NA	NA
WP_013249449.1\|2863741_2865526_+	ATP-dependent metallopeptidase FtsH/Yme1/Tma family protein	E5EQU5	Bathycoccus_sp._RCC1105_virus	9.4e-108	41.7

DBSCAN-SWA_6

3552030 : 3563782

Shigella_phage(12.5%)

integrase

attL 3548466:3548510|attR 3553132:3553176

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3548466:3548510	attL	NA	NA	NA	NA
WP_013250051.1\|3552030_3553116_+\|integrase	site-specific integrase	A0A088CD23	Shigella_phage	2.5e-31	29.1
WP_013250052.1\|3553322_3554645_-	adenylosuccinate synthase	G5CQQ4	Megavirus	2.8e-72	35.9
3553132:3553176	attR	NA	NA	NA	NA
WP_013250055.1\|3555237_3557079_+	ABC-F family ATP-binding cassette domain-containing protein	A0A2K9L0W2	Tupanvirus	3.6e-54	29.1
WP_013250056.1\|3557075_3557453_-	PilZ domain-containing protein	NA	NA	NA	NA
WP_013250057.1\|3557515_3558805_-	replication-associated recombination protein A	G3MBE0	Bacillus_virus	1.2e-83	40.4
WP_013250058.1\|3558957_3559761_+	alpha/beta fold hydrolase	A0A2R8FDA5	Brazilian_cedratvirus	5.5e-07	27.4
WP_013250059.1\|3559757_3560393_-	GTP cyclohydrolase I FolE	A0A0P0HSD2	Acinetobacter_phage	8.1e-46	50.6
WP_049787423.1\|3560385_3560820_-	hypothetical protein	NA	NA	NA	NA
WP_013250062.1\|3560967_3561288_-	iron-sulfur cluster insertion protein ErpA	A0A2H4N7M3	Lake_Baikal_phage	3.5e-21	47.1
WP_013250063.1\|3561351_3561708_-	(2Fe-2S)-binding protein	NA	NA	NA	NA
WP_013250064.1\|3561720_3562998_-	NADH-quinone oxidoreductase subunit NuoF	NA	NA	NA	NA
WP_083817581.1\|3563275_3563782_-	hypothetical protein	A0A1B1IVR4	uncultured_Mediterranean_phage	4.2e-21	39.3

Anti-CRISPR protein detection

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