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
NZ_JPTX01000038	Listeria monocytogenes strain G4599 contig45, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000012	Listeria monocytogenes strain G4599 contig12, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_JPTX01000050	Listeria monocytogenes strain G4599 contig57, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000035	Listeria monocytogenes strain G4599 contig41, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000004	Listeria monocytogenes strain G4599 contig4, whole genome shotgun sequence	1 crisprs	cas6,cas8b2,cas7,cas5,cas3,cas2	1	12	0	0
NZ_JPTX01000002	Listeria monocytogenes strain G4599 contig2, whole genome shotgun sequence	0 crisprs	csa3,DinG,cas3	0	0	1	0
NZ_JPTX01000031	Listeria monocytogenes strain G4599 contig37, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000056	Listeria monocytogenes strain G4599 contig63, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000066	Listeria monocytogenes strain G4599 contig75, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000063	Listeria monocytogenes strain G4599 contig72, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000042	Listeria monocytogenes strain G4599 contig49, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000055	Listeria monocytogenes strain G4599 contig62, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000023	Listeria monocytogenes strain G4599 contig27, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000029	Listeria monocytogenes strain G4599 contig34, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000007	Listeria monocytogenes strain G4599 contig7, whole genome shotgun sequence	0 crisprs	DinG	0	0	0	0
NZ_JPTX01000044	Listeria monocytogenes strain G4599 contig51, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000026	Listeria monocytogenes strain G4599 contig31, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000019	Listeria monocytogenes strain G4599 contig23, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000059	Listeria monocytogenes strain G4599 contig67, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000058	Listeria monocytogenes strain G4599 contig66, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000022	Listeria monocytogenes strain G4599 contig26, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000018	Listeria monocytogenes strain G4599 contig19, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000024	Listeria monocytogenes strain G4599 contig29, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000051	Listeria monocytogenes strain G4599 contig58, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000049	Listeria monocytogenes strain G4599 contig56, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000030	Listeria monocytogenes strain G4599 contig35, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000053	Listeria monocytogenes strain G4599 contig60, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000001	Listeria monocytogenes strain G4599 contig1, whole genome shotgun sequence	0 crisprs	DEDDh,cas3	0	0	2	0
NZ_JPTX01000052	Listeria monocytogenes strain G4599 contig59, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000048	Listeria monocytogenes strain G4599 contig55, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000036	Listeria monocytogenes strain G4599 contig42, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000015	Listeria monocytogenes strain G4599 contig15, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_JPTX01000060	Listeria monocytogenes strain G4599 contig69, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000057	Listeria monocytogenes strain G4599 contig65, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000003	Listeria monocytogenes strain G4599 contig3, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000016	Listeria monocytogenes strain G4599 contig16, whole genome shotgun sequence	1 crisprs	NA	0	0	0	0
NZ_JPTX01000065	Listeria monocytogenes strain G4599 contig74, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000014	Listeria monocytogenes strain G4599 contig14, whole genome shotgun sequence	0 crisprs	NA	0	0	1	1
NZ_JPTX01000045	Listeria monocytogenes strain G4599 contig52, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000020	Listeria monocytogenes strain G4599 contig24, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000025	Listeria monocytogenes strain G4599 contig30, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000064	Listeria monocytogenes strain G4599 contig73, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000040	Listeria monocytogenes strain G4599 contig47, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000037	Listeria monocytogenes strain G4599 contig43, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000006	Listeria monocytogenes strain G4599 contig6, whole genome shotgun sequence	0 crisprs	casR,csa3,RT,WYL	0	0	1	0
NZ_JPTX01000043	Listeria monocytogenes strain G4599 contig50, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000027	Listeria monocytogenes strain G4599 contig32, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000039	Listeria monocytogenes strain G4599 contig46, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000013	Listeria monocytogenes strain G4599 contig13, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000008	Listeria monocytogenes strain G4599 contig8, whole genome shotgun sequence	1 crisprs	WYL,csa3	0	0	1	0
NZ_JPTX01000017	Listeria monocytogenes strain G4599 contig18, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000009	Listeria monocytogenes strain G4599 contig9, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000021	Listeria monocytogenes strain G4599 contig25, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000032	Listeria monocytogenes strain G4599 contig38, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000005	Listeria monocytogenes strain G4599 contig5, whole genome shotgun sequence	0 crisprs	NA	0	0	2	0
NZ_JPTX01000054	Listeria monocytogenes strain G4599 contig61, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000011	Listeria monocytogenes strain G4599 contig11, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000047	Listeria monocytogenes strain G4599 contig54, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000010	Listeria monocytogenes strain G4599 contig10, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000028	Listeria monocytogenes strain G4599 contig33, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000061	Listeria monocytogenes strain G4599 contig70, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000041	Listeria monocytogenes strain G4599 contig48, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000062	Listeria monocytogenes strain G4599 contig71, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000033	Listeria monocytogenes strain G4599 contig39, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000034	Listeria monocytogenes strain G4599 contig40, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_JPTX01000046	Listeria monocytogenes strain G4599 contig53, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

51755 : 58192

Streptococcus_phage(33.33%)

integrase,transposase

attL 50918:50933|attR 55098:55113

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
50918:50933	attL	NA	NA	NA	NA
WP_033533400.1\|51755_52568_-	AAA family ATPase	A0A2D1GNS0	Pseudomonas_phage	6.8e-05	29.3
WP_033533401.1\|52560_54009_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	A0A2H4JGQ6	uncultured_Caudovirales_phage	5.2e-16	23.6
WP_033533546.1\|54028_54583_-	recombinase family protein	A0A0A7NPV4	Enterobacteria_phage	6.2e-42	51.7
WP_046670254.1\|55089_55683_+	methyltransferase domain-containing protein	M4QQF3	Micromonas_pusilla_virus	4.0e-07	36.7
55098:55113	attR	NA	NA	NA	NA
WP_033533403.1\|55719_56088_+	helix-turn-helix transcriptional regulator	E4ZFI8	Streptococcus_phage	1.9e-47	73.0
WP_033533404.1\|56080_58192_+	cadmium-translocating P-type ATPase	E4ZFI9	Streptococcus_phage	0.0e+00	90.0

Anti-CRISPR protein detection

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

2. NZ_JPTX01000012

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

95742 : 104028

Prochlorococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003731569.1\|95742_96309_-	phosphoribosylglycinamide formyltransferase	E3SNR5	Prochlorococcus_phage	2.8e-26	38.5
WP_003726210.1\|96305_97355_-	phosphoribosylformylglycinamidine cyclo-ligase	Q58MH8	Prochlorococcus_phage	3.2e-63	44.4
WP_003722245.1\|97373_98801_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	1.1e-53	34.6
WP_046670802.1\|98785_101005_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.4e-158	40.7
WP_060587023.1\|100997_101681_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_003722248.1\|101684_101930_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_003726214.1\|101941_102655_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3F9V5	Synechococcus_phage	2.0e-40	38.3
WP_003729814.1\|102735_104028_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	2.5e-17	33.0

Anti-CRISPR protein detection

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

3. NZ_JPTX01000015

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

47 : 10169

Listeria_phage(93.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_026750224.1\|47_1406_-	recombinase family protein	Q8LTD8	Listeria_phage	2.1e-256	99.1
WP_060587045.1\|1470_2268_-	hypothetical protein	A0A1S7FYW2	Listeria_phage	6.2e-35	67.0
WP_014601103.1\|2322_2490_-	hypothetical protein	NA	NA	NA	NA
WP_060571499.1\|2647_3124_-	helix-turn-helix transcriptional regulator	A8ASM2	Listeria_phage	5.8e-41	62.7
WP_003731437.1\|3292_3496_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003733687.1\|3528_3723_+	hypothetical protein	A0A059T6E5	Listeria_phage	1.4e-25	95.3
WP_060587047.1\|3681_4041_-	DUF2513 domain-containing protein	A0A2H4J4K9	uncultured_Caudovirales_phage	1.0e-05	25.4
WP_015987418.1\|4105_4342_+	hypothetical protein	A8ATX7	Listeria_phage	1.1e-37	100.0
WP_003731222.1\|4338_4692_+	hypothetical protein	A8ATX8	Listeria_phage	9.9e-54	100.0
WP_003731223.1\|4669_5212_-	hypothetical protein	A8ATX9	Listeria_phage	2.8e-95	100.0
WP_015987419.1\|5275_6049_+	phage repressor protein/antirepressor Ant	A8ATY0	Listeria_phage	1.1e-140	100.0
WP_060587049.1\|6169_6703_+	hypothetical protein	A8ATY1	Listeria_phage	8.7e-78	86.7
WP_023548459.1\|6699_6915_+	hypothetical protein	Q9T176	Listeria_phage	9.7e-28	93.0
WP_039385072.1\|7023_7212_+	hypothetical protein	Q9T175	Listeria_phage	4.8e-23	83.9
WP_031646021.1\|7444_8404_+	YqaJ viral recombinase family protein	A8ATY5	Listeria_phage	1.9e-176	98.4
WP_003725086.1\|8406_9222_+	recombinase RecT	A8ATY6	Listeria_phage	4.2e-148	97.4
WP_060587051.1\|9251_10169_+	hypothetical protein	A8ATY7	Listeria_phage	1.3e-20	32.6

Anti-CRISPR protein detection

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

4. NZ_JPTX01000004

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CRISPR-Cas detection and classification

Crispr_ID: NZ_JPTX01000004_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_JPTX01000004_1

51031-52422

Unclear

I-A

Consensus_repeat	Method
GTTTTAACTACTTATTATGAAATGTAAAT	PILER-CR
GTTTTAACTACTTATTATGAAATGTAAAT	CRISPRCasFinder
GTTTTAACTACTTATTATGAAATGTAAAT	CRT

21 spacers

cas2,cas3,cas5,cas7,cas8b2,cas6

The CRISPR arrays of NZ_JPTX01000004_1

>merge|NZ_JPTX01000004|1|51031-52422|PILER-CR,CRISPRCasFinder,CRT
GTTTTAACTACTTATTATGAAATGTAAATCAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGCGTTTTAACTACTTATTATGAAATGTAAATATTACAGTACAAGCAAGGGTTATTGAGTTAAATATTGTTTTAACTACTTATTATGAAATGTAAATATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGGGTTTTAACTACTTATTATGAAATGTAAATTCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAGGTTTTAACTACTTATTATGAAATGTAAATTCGTTTATGACCTTATGAAAGAGTTAACACCTCGACGTTTTAACTACTTATTATGAAATGTAAATCTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTGGTTTTAACTACTTATTATGAAATGTAAATAGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCCGTTTTAACTACTTATTATGAAATGTAAATACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTGGTTTTAACTACTTATTATGAAATGTAAATTTCGTAATTTTACGATTATACTTTTTAGTCAAATTACGTTTTAACTACTTATTATGAAATGTAAAAGTAACAAGTAGTGTTATACCTGCAACAATACCAGCGTTTTAACTACTTATTATGAAATGTAAATTGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAGGTTTTAACTACTTATTATGAAATGTAAATGTCCACATCGACAATAAAAAACACATTGTATCACTTGTTTTAACTACTTATTATGAAATGTAAATCTGGTTACTCAACTGGCGACAGTAATACACCTCAATGTTTTAACTACTTATTATGAAATGTAAATTTTGGATAGGTTGTTTCTGATAAATAGGTTCACGGTTTTAACTACTTATTATGAAATGTAAATAGAAAAAAACATCTTTCCAATTTGTTGTTTTGCGTTTTAACTACTTATTATGAAATGTAAATACAAGTGCTAGAACAGAAGTTATAATTTGAACATTACGTTTTAACTACTTATTATGAAATGTAAATTTGTTCGACGGCTTAGACAACCATCACGCTTCTTTAGTTTTAACTACTTATTATGAAATGTAAATTATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGAGTTTTAACTACTTATTATGAAATGTAAATAAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGGGTTTTAACTACTTATTATGAAATGTAAATGTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTTGTTTTAACTACTTATTATGAAATGTAAATTTTTGAAATATGAGGACTTAGAAAATGAAAAAAATGTTTTAACTACTTATTATGAAATCATAAA

>NZ_JPTX01000004|1|1|51031-52358|PILER-CR
GTTTTAACTACTTATTATGAAATGTAAAT	CAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGC
GTTTTAACTACTTATTATGAAATGTAAAT	ATTACAGTACAAGCAAGGGTTATTGAGTTAAATATT
GTTTTAACTACTTATTATGAAATGTAAAT	ATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGG
GTTTTAACTACTTATTATGAAATGTAAAT	TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG
GTTTTAACTACTTATTATGAAATGTAAAT	TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC
GTTTTAACTACTTATTATGAAATGTAAAT	CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG
GTTTTAACTACTTATTATGAAATGTAAAT	AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC
GTTTTAACTACTTATTATGAAATGTAAAT	ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG
GTTTTAACTACTTATTATGAAATGTAAAT	TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC
GTTTTAACTACTTATTATGAAATGTAAAA	GTAACAAGTAGTGTTATACCTGCAACAATACCAGC
GTTTTAACTACTTATTATGAAATGTAAAT	TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG
GTTTTAACTACTTATTATGAAATGTAAAT	GTCCACATCGACAATAAAAAACACATTGTATCACTT
GTTTTAACTACTTATTATGAAATGTAAAT	CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT
GTTTTAACTACTTATTATGAAATGTAAAT	TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG
GTTTTAACTACTTATTATGAAATGTAAAT	AGAAAAAAACATCTTTCCAATTTGTTGTTTTGC
GTTTTAACTACTTATTATGAAATGTAAAT	ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC
GTTTTAACTACTTATTATGAAATGTAAAT	TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA
GTTTTAACTACTTATTATGAAATGTAAAT	TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA
GTTTTAACTACTTATTATGAAATGTAAAT	AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG
GTTTTAACTACTTATTATGAAATGTAAAT	GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT
GTTTTAACTACTTATTATGAAATGTAAAT

>NZ_JPTX01000004|1|1|51031-52422|CRISPRCasFinder
GTTTTAACTACTTATTATGAAATGTAAAT	CAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGC
GTTTTAACTACTTATTATGAAATGTAAAT	ATTACAGTACAAGCAAGGGTTATTGAGTTAAATATT
GTTTTAACTACTTATTATGAAATGTAAAT	ATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGG
GTTTTAACTACTTATTATGAAATGTAAAT	TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG
GTTTTAACTACTTATTATGAAATGTAAAT	TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC
GTTTTAACTACTTATTATGAAATGTAAAT	CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG
GTTTTAACTACTTATTATGAAATGTAAAT	AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC
GTTTTAACTACTTATTATGAAATGTAAAT	ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG
GTTTTAACTACTTATTATGAAATGTAAAT	TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC
GTTTTAACTACTTATTATGAAATGTAAAA	GTAACAAGTAGTGTTATACCTGCAACAATACCAGC
GTTTTAACTACTTATTATGAAATGTAAAT	TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG
GTTTTAACTACTTATTATGAAATGTAAAT	GTCCACATCGACAATAAAAAACACATTGTATCACTT
GTTTTAACTACTTATTATGAAATGTAAAT	CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT
GTTTTAACTACTTATTATGAAATGTAAAT	TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG
GTTTTAACTACTTATTATGAAATGTAAAT	AGAAAAAAACATCTTTCCAATTTGTTGTTTTGC
GTTTTAACTACTTATTATGAAATGTAAAT	ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC
GTTTTAACTACTTATTATGAAATGTAAAT	TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA
GTTTTAACTACTTATTATGAAATGTAAAT	TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA
GTTTTAACTACTTATTATGAAATGTAAAT	AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG
GTTTTAACTACTTATTATGAAATGTAAAT	GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT
GTTTTAACTACTTATTATGAAATGTAAAT	TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT
GTTTTAACTACTTATTATGAAATCATAAA

>NZ_JPTX01000004|1|1|51031-52422|CRT
GTTTTAACTACTTATTATGAAATGTAAAT	CAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGC
GTTTTAACTACTTATTATGAAATGTAAAT	ATTACAGTACAAGCAAGGGTTATTGAGTTAAATATT
GTTTTAACTACTTATTATGAAATGTAAAT	ATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGG
GTTTTAACTACTTATTATGAAATGTAAAT	TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG
GTTTTAACTACTTATTATGAAATGTAAAT	TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC
GTTTTAACTACTTATTATGAAATGTAAAT	CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG
GTTTTAACTACTTATTATGAAATGTAAAT	AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC
GTTTTAACTACTTATTATGAAATGTAAAT	ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG
GTTTTAACTACTTATTATGAAATGTAAAT	TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC
GTTTTAACTACTTATTATGAAATGTAAAA	GTAACAAGTAGTGTTATACCTGCAACAATACCAGC
GTTTTAACTACTTATTATGAAATGTAAAT	TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG
GTTTTAACTACTTATTATGAAATGTAAAT	GTCCACATCGACAATAAAAAACACATTGTATCACTT
GTTTTAACTACTTATTATGAAATGTAAAT	CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT
GTTTTAACTACTTATTATGAAATGTAAAT	TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG
GTTTTAACTACTTATTATGAAATGTAAAT	AGAAAAAAACATCTTTCCAATTTGTTGTTTTGC
GTTTTAACTACTTATTATGAAATGTAAAT	ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC
GTTTTAACTACTTATTATGAAATGTAAAT	TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA
GTTTTAACTACTTATTATGAAATGTAAAT	TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA
GTTTTAACTACTTATTATGAAATGTAAAT	AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG
GTTTTAACTACTTATTATGAAATGTAAAT	GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT
GTTTTAACTACTTATTATGAAATGTAAAT	TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT
GTTTTAACTACTTATTATGAAATCATAAA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_JPTX01000004.1\|WP_003721301.1\|40752_41184_+\|universal-stress-protein	unknown	unknown	gnl\|CDD\|366180
NZ_JPTX01000004.1\|WP_003731264.1\|52494_52863_-\|DUF1304-domain-containing-protein	unknown	unknown	gnl\|CDD\|226282
NZ_JPTX01000004.1\|WP_003731259.1\|43949_44672_+\|CRISPR-associated-endoribonuclease-Cas6	cas6	pfam01881_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NZ_JPTX01000004.1\|WP_003727297.1\|42781_43597_-\|histidine-phosphatase-family-protein	unknown	unknown	gnl\|CDD\|223483
NZ_JPTX01000004.1\|WP_012681123.1\|61747_62677_+\|site-specific-integrase	unknown	unknown	gnl\|CDD\|271189
NZ_JPTX01000004.1\|WP_003727299.1\|38822_40652_+\|lmo0514-family-class-1-internalin	unknown	unknown	gnl\|CDD\|380190
NZ_JPTX01000004.1\|WP_031643486.1\|46365_47235_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|274215
NZ_JPTX01000004.1\|WP_003740448.1\|54554_55559_+\|ROK-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224851
NZ_JPTX01000004.1\|WP_077397267.1\|62716_63916_-\|restriction-endonuclease-subunit-S	unknown	unknown	gnl\|CDD\|223804
NZ_JPTX01000004.1\|WP_003721310.1\|50554_50833_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NZ_JPTX01000004.1\|WP_012681121.1\|55836_58824_+\|type-I-restriction-endonuclease-subunit-R	unknown	unknown	gnl\|CDD\|223683
NZ_JPTX01000004.1\|WP_031641459.1\|60457_61663_+\|restriction-endonuclease-subunit-S	unknown	unknown	gnl\|CDD\|223804
NZ_JPTX01000004.1\|WP_003727295.1\|53008_54424_+\|multidrug-efflux-MFS-transporter	unknown	unknown	gnl\|CDD\|129794
NZ_JPTX01000004.1\|WP_003726690.1\|65480_66233_+\|MurR/RpiR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224651
NZ_JPTX01000004.1\|WP_003727298.1\|41230_42661_-\|CapA-family-protein	unknown	unknown	gnl\|CDD\|225399
NZ_JPTX01000004.1\|WP_003731262.1\|47212_47995_+\|type-I-B-CRISPR-associated-protein-Cas5	cas5	cd09658_cas5_CAS-I-B	gnl\|CDD\|273860
NZ_JPTX01000004.1\|WP_003726689.1\|63962_65279_-\|6-phospho-beta-glucosidase	unknown	unknown	gnl\|CDD\|133432
NZ_JPTX01000004.1\|WP_009928927.1\|58871_60461_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|280533
NZ_JPTX01000004.1\|WP_003731260.1\|44687_46376_+\|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1	cas8b2	cd09754_cas8b2_CAS-I-B	gnl\|CDD\|187884
NZ_JPTX01000004.1\|WP_046670317.1\|48062_50252_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124

Protein	Function_ID	Function_description	E-value
NZ_JPTX01000004.1\|WP_003721301.1\|40752_41184_+\|universal-stress-protein	gnl\|CDD\|366180	pfam00582, Usp, Universal stress protein family. The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, though UspA lacks ATP-binding activity.	4.03126e-27
NZ_JPTX01000004.1\|WP_003731264.1\|52494_52863_-\|DUF1304-domain-containing-protein	gnl\|CDD\|226282	COG3759, COG3759, Predicted membrane protein [Function unknown].	1.68051e-41
NZ_JPTX01000004.1\|WP_003731259.1\|43949_44672_+\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	1.25848e-32
NZ_JPTX01000004.1\|WP_003727297.1\|42781_43597_-\|histidine-phosphatase-family-protein	gnl\|CDD\|223483	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only].	4.22926e-50
NZ_JPTX01000004.1\|WP_012681123.1\|61747_62677_+\|site-specific-integrase	gnl\|CDD\|271189	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons. This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.	9.1804e-47
NZ_JPTX01000004.1\|WP_003727299.1\|38822_40652_+\|lmo0514-family-class-1-internalin	gnl\|CDD\|380190	NF033186, internalin_K, class 1 internalin InlK. Internalins, as found in the intracellular human pathogen Listeria monocytogenes, are paralogous surface-anchored proteins with an N-terminal signal peptide, leucine-rich repeats, and a C-terminal LPXTG processing and cell surface anchoring site. Members of this family are internalin K (InlK), a virulence factor. See articles PMID:17764999. for a general discussion of internalins, and PMID:21829365, PMID:22082958, and PMID:23958637 for more information about internalin K.	2.70695e-122
NZ_JPTX01000004.1\|WP_031643486.1\|46365_47235_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|274215	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP. 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 clade is a member of the DevR family (TIGR01875) and includes the DevR protein of Myxococcus xanthus, a protein whose expression appears to be regulated through a number of means, including both location and autorepression; DevR mutants are incapable of fruiting body development.	1.65441e-55
NZ_JPTX01000004.1\|WP_003740448.1\|54554_55559_+\|ROK-family-transcriptional-regulator	gnl\|CDD\|224851	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism].	5.58402e-21
NZ_JPTX01000004.1\|WP_077397267.1\|62716_63916_-\|restriction-endonuclease-subunit-S	gnl\|CDD\|223804	COG0732, HsdS, Restriction endonuclease S subunits [Defense mechanisms].	1.09134e-16
NZ_JPTX01000004.1\|WP_003721310.1\|50554_50833_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	5.1393e-30
NZ_JPTX01000004.1\|WP_012681121.1\|55836_58824_+\|type-I-restriction-endonuclease-subunit-R	gnl\|CDD\|223683	COG0610, COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms].	0
NZ_JPTX01000004.1\|WP_031641459.1\|60457_61663_+\|restriction-endonuclease-subunit-S	gnl\|CDD\|223804	COG0732, HsdS, Restriction endonuclease S subunits [Defense mechanisms].	4.96967e-17
NZ_JPTX01000004.1\|WP_003727295.1\|53008_54424_+\|multidrug-efflux-MFS-transporter	gnl\|CDD\|129794	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily. This subfamily of drug efflux proteins, a part of the major faciliator family, is predicted to have 14 potential membrane-spanning regions. Members with known activities include EmrB (multiple drug resistance efflux pump) in E. coli, FarB (antibacterial fatty acid resistance) in Neisseria gonorrhoeae, TcmA (tetracenomycin C resistance) in Streptomyces glaucescens, etc. In most cases, the efflux pump is described as having a second component encoded in the same operon, such as EmrA of E. coli. [Cellular processes, Toxin production and resistance, Transport and binding proteins, Other].	3.97112e-80
NZ_JPTX01000004.1\|WP_003726690.1\|65480_66233_+\|MurR/RpiR-family-transcriptional-regulator	gnl\|CDD\|224651	COG1737, RpiR, Transcriptional regulators [Transcription].	7.01666e-64
NZ_JPTX01000004.1\|WP_003727298.1\|41230_42661_-\|CapA-family-protein	gnl\|CDD\|225399	COG2843, PgsA, Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane].	2.66378e-99
NZ_JPTX01000004.1\|WP_003731262.1\|47212_47995_+\|type-I-B-CRISPR-associated-protein-Cas5	gnl\|CDD\|273860	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP. 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 TM1800 from Thermotoga maritima. It is related to TIGR01868 (CRISPR-associated protein, CT1976 family).	3.98256e-24
NZ_JPTX01000004.1\|WP_003726689.1\|63962_65279_-\|6-phospho-beta-glucosidase	gnl\|CDD\|133432	cd05296, GH4_P_beta_glucosidase, Glycoside Hydrolases Family 4; Phospho-beta-glucosidase. Some bacteria simultaneously translocate and phosphorylate disaccharides via the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). After translocation, these phospho-disaccharides may be hydrolyzed by the GH4 glycoside hydrolases such as the phospho-beta-glucosidases. Other organisms (such as archaea and Thermotoga maritima ) lack the PEP-PTS system, but have several enzymes normally associated with the PEP-PTS operon. The 6-phospho-beta-glucosidase from Thermotoga maritima hydrolylzes cellobiose 6-phosphate (6P) into glucose-6P and glucose, in an NAD+ and Mn2+ dependent fashion. The Escherichia coli 6-phospho-beta-glucosidase (also called celF) hydrolyzes a variety of phospho-beta-glucosides including cellobiose-6P, salicin-6P, arbutin-6P, and gentobiose-6P. Phospho-beta-glucosidases are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.	0
NZ_JPTX01000004.1\|WP_009928927.1\|58871_60461_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|280533	pfam02384, N6_Mtase, N-6 DNA Methylase. Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The R-M system is a complex containing three polypeptides: M (this family), S (pfam01420), and R. This family consists of N-6 adenine-specific DNA methylase EC:2.1.1.72 from Type I and Type IC restriction systems. These methylases have the same sequence specificity as their corresponding restriction enzymes.	8.00239e-141
NZ_JPTX01000004.1\|WP_003731260.1\|44687_46376_+\|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1	gnl\|CDD\|187884	cd09754, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Large proteins, some contain Zn-finger domain; signature gene for I-A subtype; also known as CXXC_CXXC family.	3.08159e-26
NZ_JPTX01000004.1\|WP_046670317.1\|48062_50252_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	4.63093e-59

>NZ_JPTX01000004.1|WP_003721310.1|50554_50833_+|CRISPR-associated-endonuclease-Cas2
MYVILIYDISIENGGAKVWRNVFKICKKYLTHVQKSVFEGEITPALLVKLRMELDKYIRDDQDSVIVFSSRQQRWLEKEFWGLTDEKTSNFF
>NZ_JPTX01000004.1|WP_046670317.1|48062_50252_+|CRISPR-associated-helicase/endonuclease-Cas3
MHKYLAKSNPEETIQEHTDNLLKNYQRLKKLYPAVEIDWYLLELVCLLHDLGKMNLLFQTKLGNASGKGKEIPHGYLSVAFVPDSKLEEMGYSEDEIKVVYQAIARHHERKYDFSDSEWKKEIIKLEEQWAGFIYSQLGENAEYSSEVEMLYFYPGSRIFEGNSAADAETFKKYVLLKGLLNRIDFAASGGIDVELENDFLMDSMEVQLAHFKAENPEADWNALQKYMMQHQNENIVVIAETGMGKTEAGLLWLGNNKGFFTLPLRAAINAIYERITKNIVTTNQAERVGLLHSETYSQYLLHEGNAEMDIDEYYTRTRQMSLPITICTLDQLFDFVFRYAGFEHKLATLSYSKVIIDEIQMYSPDLLAYLILGLSYIDKFGGKFCIMTATLPGIVTDLLLENGVDFVQPEDKFVSSRIRHSMEMVHTEIESEFIKPFFNNNRILVICNTISKAKKIYSELKEHFQGEEIHLIHSQFIKKDRSAKEDAIFKDGQKDSKKKCIWVATQVVEASLDIDFDLLFTELSDVNGLFQRMGRCYRNRRLDVDTNVYVFDGGAKVCSGVGIDNFIDKLIFENSKTILNEHAGVLTEEKKMELVEQVYSTEALSGSKFYKELIRTINYVKAFESYLMNKADVRRRFRNINSVSVIPEEVWQDNAEEINSYFVTLRKTSKEISTKEKIIARTNLAEFMVSIPDYLYKKGESVVREINRYESVIEFKCGYSSDVGVFMR
>NZ_JPTX01000004.1|WP_003731262.1|47212_47995_+|type-I-B-CRISPR-associated-protein-Cas5
MLIMKAIRVKLWQDLVNFKKPTSFQLKETYPLPPYSTVIGMVHTLCGFTSYHEMKISIQGKYFSKVNDLATRYEFKNGMTYDASRHQIKVDKYGVSRGVSTVELLVDLELLLHIIPEDPSLVPIIEKAFREPIEFPSLGRREDIATIQKVEVVDVEKRQPKKSTEISDGYNAYVPISLTENNSVHFKSHESSVGRDKLLGTRYLLTEKYERVNHGTEKAPKFFRKWRKKDVIYSSRIFVSKKDVFFFDEDDYLVFIEEEE
>NZ_JPTX01000004.1|WP_031643486.1|46365_47235_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MKNKGLAMTIIFQAESANYGESLGNISSLKKISRNNGDQYTYISRQAIRYNLMDQIGEKEAPVKAEGGGDKKVIQFLSEATITDFPELDFFGYLKTEKGSGGQKRSAKVRLSNAISLETFKGDLDFLTNKGQADKLNENMNIAQAEIHKSYYRYTMTIDLDQIGIDGEIALENKEKARRVKKLMDTVAFLYRDIRGRREDLKPLFVIGGVYDVKNPVFQNVVDVADNNIVIKNIKDLLTYEDIKENTRVGIIDGQFANSDEVKVELKAESVPAFFNDIKGKIDAYYESN
>NZ_JPTX01000004.1|WP_003731260.1|44687_46376_+|type-I-B-CRISPR-associated-protein-Cas8b1/Cst1
MRTEIEVRANDWLINAGLIGFLNIVGKENVRIDGQSIYFTADLLEDFETKYFNFFIQEFKETLSWYKIVSYKETMEQFRIDEFASFDEVALGNLNKYMKDVVKFYLKKVNYIKVFPLIDPSANVTKWLENLNTINLTKKQRWDEVKADIIEEVKQTYTQLDLIIDFCASEKGLQYLGAKNLIYSVINKGWSGVSFLFKQTKFIDPYLDYKTTFVDSVLDYLDTDLSKAKYNCFNCNQPIKNLKLDLSFMNDVGFDTARKTSHVWDFNNDVATCPICRLIYSCVPAGFTYVYGEGMFVNDSYGVEELHRVNERMRNSILSFNQDGINSTNTYRALVESITMEHENNRRYELADIQLVRYENEHYRFNLLSKKMLHIVNDSKGILKGLIRCGYKEGNLNVNLYKEVLQHLMNNENLFTLIHKLIYYKQTSVNGLYYNMGHVSGILDINTKFLKEMEVMTNISQNQLWFVQNCGKEFKEGYVKKKSENKISGITYKLLNSLKVNDKDGFMDTLLNSYSYLAMPIPDVFIKMFSDNEAFKSVGYAFMLGVGGEKTKKEDGGNTDEK
>NZ_JPTX01000004.1|WP_003731259.1|43949_44672_+|CRISPR-associated-endoribonuclease-Cas6
MRLKINCDFDSKIIPKDFQSKVVSLFKAGIMKSSPERYENLFGGNKHKQYTFSVYLPKPQNKGAEIQLNEANCIINFSTGDAETGIIFYNALISLRGSKILFGAGNNITIKNIQIVPEKKIIGNRTILRTLSPVVSRDHNRETFKNWFYSFEDEEFEPTLKRNMLPYLIDAFGEQARYDLEKLKITPISMKKVVVYCHEIHIESSVGIFELEAEAYLQKYLVENGLGTMTGSGFGMIEQL
>NZ_JPTX01000004.1|WP_003727297.1|42781_43597_-|histidine-phosphatase-family-protein
MKKNIFKLMMALCAVLLIAGCGNSTSADKKETKETKEDGTVTFYVVRHGKTMLNTTDRVQGWSDAVLTPAGEEVVKSAGKGLKDVDFSAAYSSDSGRAIQTANLILKESDKSADKEVQTDPRFREFNFGSYEGDLNENMWTDIAKSQGKTLEEWQKAGISPKDFADSVAALDKTRVKEGENWPAEDYATIQARLKEGLTDVAKKESKNGDSNVLLVSHGLSIGALLDTIEPGYKLPAEGIKNASVTKITYKDGKFTIGDVNDLSYVEKGSK
>NZ_JPTX01000004.1|WP_003727298.1|41230_42661_-|CapA-family-protein
MKRRTYVIITGLVLIFVAGAFWITNSTNQSDQKATQTEPLKKTSPANVKTISSEAKKTLNSLASSGADKASISDLNQLIKELKSYPVEKNDSGAYLQNLTACLEAVKSYTTGKTDEKTLGKVYPAFLASEQKLSAIEKTNQYDWFYAAAATNQQGLKEKGVVTLTMVGDNSFGTYPETPEHLKFDNVFQKNNGNNTYVYKNCLPWFKSDDYTVINAESAFTNATKAENKKWRIKSDPAHVAFLPASGVEAANLANNHTMDYFQVGYDDTLKAFKENNIPVFNTDAPLETTIKGMKTVLLGYDCRMSQQSPAYLERIVKDVKKYKKENTLVIVNMHWGVEYRETPTDYQTQFGHAILDAGADIIMGSHPHRLESVEKYKDKYIVYSMGDFAFGADPTLLSRMTSMFQLRFTKEDNKIVLKDISIVPTYENSDGSTTENNYQPLPVFGDDAKKIVDELNRISKPIEGGVTEYTYFDPF
>NZ_JPTX01000004.1|WP_003721301.1|40752_41184_+|universal-stress-protein
MEKYHRILVAVDGSEPAKLAFEKGLELALKLDGVLGIASIVDLRAFSPNVSYDGSLEEKAELELKTSVNEYAEKARTAGVKQVETFVAKGNPKILLSTDIPAEFQADLIICGATGMNRVEKLVLGSVSSYIMAHAICDTLIAR
>NZ_JPTX01000004.1|WP_003727299.1|38822_40652_+|lmo0514-family-class-1-internalin
MKKALKLFLATICMFIMIYPSTAAHAEETNIVNIPDANLKTYLNGLLKQASDAPITKTQMNTIQTVTLSGSTYTDLTGLEEAGNLVTLSLNNTNIQTLEPIKNQTSLTYLTVGGDNVKDSLFVDLNGLVNLQSLSISGSEVTHNVFKTFNKLPKLTYLYAQNSMKITDISALASLPALTTLFLQFDGIDDFRPLNDFESFKNGNLKALAAFGQNTGRTNPRITLKSGKLDYNETNQTLYLPFSMMPKPLTSFDGTVAPFSKSTSASNTYLGFNDVALPSARLSITDDGITVSGVTKEEFDNLDEIEYNARYDFPTGSYPTPPSMNSYTISSGTYDQYFDISHTLDLTADESFDYNQYDATSEEQFLKDVHAETDDGTAVKSDFDQVVKLDVPGEYTVTLNAENAAGLKATPVTVKVTVHEKPVITADSQISYKKESTKSVDEFLQEIHSSVTGNAVLTSDFDKVVDLNTPGEYTVTLNAINDRGQKADPVTVVVTVTTSDGGHVNPVPPTPEVKPTPQEETDPTIIPEPQSENSEDPVKENNAKTEEKANKTSLTTKENKVEKADKAEKTNQPKTKALPQTGDTNKSTLPIAGVMLSLAALLIFRKSKS
>NZ_JPTX01000004.1|WP_003731264.1|52494_52863_-|DUF1304-domain-containing-protein
MAILAFILTFIVMIEHIYIMILEMFFANTNLAAKTFGVEKELLANKKVQTLFANQGLYNGFLAAGLVWGLFFAGAGMAETVQIFFLSCVVVAALFGGATSSKGILVKQGLPAVLALVVVLLV
>NZ_JPTX01000004.1|WP_003727295.1|53008_54424_+|multidrug-efflux-MFS-transporter
MQQEATGGQKIRPIPIIASFLMAGFIGLFSETALNMALSDLIQVFDISSATVQWLTTGYLLTLGILVPISGLLLQWFTTRGLFFTAVSFSIAGTLIAALSPTFAMLMIGRVVQAVGTALLLPLMFNTILLIFPEHKRGSAMGMIGLVIMFAPAVGPTISGLILENLTWNWIFWISLPFLIIALLFGMKFMQNVSVVTKPKIDILSIILSTLGFGGVVFAFSSAGESGWGSATVLVSIIVGGLALGLFVWRQLTMEKPLMDLKVFKYPMFTLGLILVFISFMMILSTMILLPLYLQNSLALAAFSAGLVLLPGGVLNGLMSPFTGRLFDAYGPRALVIPGFIVAVVALFFLTRIEVGTSALTIIVLHSVLMIGISMVMMPAQTNGLNQLPPKLYPDGTAIMNTLQQVSGAIGTAVAITIMSAGQKAYMETAQGVGPEQMVASLTAGIQNAFVFGLIMACIGLLCSLFIRKAK
>NZ_JPTX01000004.1|WP_003740448.1|54554_55559_+|ROK-family-transcriptional-regulator
MAIPRDLKELNKKNIKSILRQQGAMTKAEIAEVTGLSVVTVNKLIRDLVENEEILEQDNSVATGGRRAVSYEINPNFQQVLVISLQEKWKKITYSFSVYNLLGEPEFVEDMSGEDLDITALKRNTKDLVCAFPKISCVVIGVPGIEIGGKLRAMDFPLLLNVQLRETLEAEVNLPVLVETDTNAAILGYKNRPVKEENIVGLYYPERFPPGAGLLMNGEILKGQNGLAGEIKHMPLQVDWDNFDFSVDEIKAHIRKMVLLTMSFYDPETIVLYTNFYFGQKDFTEELTEELKQVYPYAVLPEIVLSRKFTTDYRIGLLAFGIDYLENNMTDWRI
>NZ_JPTX01000004.1|WP_012681121.1|55836_58824_+|type-I-restriction-endonuclease-subunit-R
MAEAKFEAALIKKLETEGWTYREDLSNVSIKKLEEHWRDILNETNAHKLNGVPLSEIEFGLILQELQRIKTPYDAQLLLVGAGGVGSIPITRDDGSSLEVEIFYEDDVAGGRSRYEIVNQVRFDNLPKGLTTKRIIDVALLINGIPVVHIEEKDEHLQNQWRAFEQLKGYHGDGLYKGLFAFVQVQVIMSQHSAHYFARPNAFEQYNKTFVFGWRDENNKDITDAFEFIHQVMSIPALHRLVTVNMIPDASNDNIMVMRSYQIQATREILQRMKEMEASGLVQKEGGYIWHTTGSGKTVTSFKVAQLLASAPRIKNVLFIVDRIDLIDQTLENFKSFAYAHFKNRIKKVNGRELKRELKRKGSSQILLISVQGLTKAVKKGLENDDWNVIIMDEAHRSASGESVKLIKKALKKTTWFGFTGTPNFYSDEINDVKTTREISTHDIFGKRLHTYTIKDAIGDGNVLGFDVTYFKPHWVVEHPQEDFSEKDYEKEVYQSDVYRQEVVKDILDNWTKTSSGALIAGKREENAFQAMFAVSGKQAAVNYYNIFKSKGSHLNVAMTFSRDESNEHGTKEQNEALKNAIKDYTEKFNVASILDAKDPARAYMLDITKRLARKRPYNQGKEEDRLDLVIVSDQLLTGFDSKFINVIYMDKMLKEGMLIQAISRTNRTFDLNSKPHGKVRFYRQGDEMREFVENALRIYTRGGNDTLQEAEEETKNQLPKDLENDDILAKPQSHQINELEEAILRLKELAGDDFSQVPRGQNDLKEFVGLALTTQTKIQQLIQQGYELGSEIEELNEQGEATGRMVRLNISSIDEFGALQARLYDAKEKLPPEERPDLTEIKIGIEFYHHEIIDYDMLVELLNTFMDEKNKSNKDAIEKHIVPMDEESQHEIHGIVDDIEAGHITEHFTTDSLQETRKKYRTEHRELKVRRWAANQKVNGNRIVEAFDLFLPGHTLIDNPKLADIVREIEEEENIGFFEASDFEEELMAFFNSL
>NZ_JPTX01000004.1|WP_009928927.1|58871_60461_+|type-I-restriction-modification-system-subunit-M
MALSTEQKTKMWAMLNQTRGQIGLTAYKDYIFGILFYKYLSEKATHWLNGVLRGENWESVYSQDSVKALNYMKKNLGYAIQPNEFFVDWKKAIDTDRFNIGMMTDTFTHFNQQIAFEAKNDFEGIFDGMRFDSADLGANAQARASVMISMIELLSSPEFDLSGSNDTVSDIYEYLVAQFATVLASDMGQYYTPKEISNVMARILTFGREDMEKFSIFDPTVGSGSLLLTTASYMKNSGRRGVIKYYGQEKDATPYRLSRMNLMMHGIEYNDININHADTLESDWPDGVVDGKDTPRMFDAVMANPPYSAHWNNKDREDDPRWREYGVSPKTKADYAFLLHCLYHLEDNGRMAIILPHGVLFRGASEGRIRKALIDKHQIEAIIGFPEKLFLNTPIPVCVVILRKNRIESDVLFVDASKGFEKIKKQNNLRSEDVEKIVDTVINRKEIEKYSHVATLDEIKENDYNLNIPRYVDTFEEEEAIDLVALGNEMVALNADIKKAETDFLGLLDELAVTADTKEIIEATKAVFR
>NZ_JPTX01000004.1|WP_031641459.1|60457_61663_+|restriction-endonuclease-subunit-S
MKKLEKSVPVIRFKGFSEAWEQRKLGDLVVDYVEKTSVQNQFPMLTSSQQKGIVLQEDYFANRQVTTENNIGYFVLPRGYFTFRSRSDNDVFVFNRNDIIDRGIISYFYPVFTLKSADSDFFLRRINNGIQRQLSIQAEGTGQHVLSLKKFKNIVAMFPSEGEQKKIGSFFKQLDDTIALHQRKLDTLKQMKKGLLQQMFPKSEEDVPKIRFADFDEEWYQRKLGEEFEKINERNDGSFGKTHWISVAKMYFVEPNKVLSNNIDTRTYVMRKGDIAFEGHSNTDFKFGRFVANDIGPGIVSELFPVYRHKTNYDNNYWKNAIQLEHIMAPIYSKSITSSGNSSNKLDSKHFLNQKIYIADFEEQEKIGSIFKQLDNTIILYQNKLNKFDILKKAYLQTMFI
>NZ_JPTX01000004.1|WP_012681123.1|61747_62677_+|site-specific-integrase
MKAKKRKEQTFHEYFKEWVDLYKVGAIRSITLQKYYVTEQKIQELVPELKIKDLDRYTYQQLLNNYALTHEKQTTMDFHHHLKGAILDAVDEGVLNQNPTRKIVIKGKNPRPKKAKFLNQFEVQVLLKELNLKEDINWDWFILLIIKTGLRFSEALALTPSDFDFSTQKISINKTWDYKMVTGSFQPTKNESSNRKIQIDWQLAMQFSQLIKMKDSDKPIFVKSRVFNSTINNRLKVLCQNANIPTITIHSLRHTHASLLLFAGVSIASVANRLGHSSMTTTQETYLHIIQELENQDNDKIIRHLSMLM
>NZ_JPTX01000004.1|WP_077397267.1|62716_63916_-|restriction-endonuclease-subunit-S
MLPLFYVISHYSNLPFRAWEQRKFIEIINRLSKTSNSSILPKVEYEDIIAEEGRLNKDISNKFDSRKGILFQPKNILYGKLRPYLKNWLYPDFKGVAVGDFWVFEAIEATPRFIYNLIQSDSYQKVANDTAGTKMPRSDWTKVSNSSFFIPKESSEQKRIGTFFKQLDDTIALHQRKLDTLKQMKKGLLQQMFPKSEEDVPKIRFADFDEEWYQRKLGEISDKVIEKNKESTYFETLTNSAEYGIISQREFFNKDISNEKNLNGYYIVRENDFVYNPRISNYAPVGPIKRNKLGRIGIVSPLYYVFRTFDTNQSFLEYYFDGTVWHNFMLLNGDSGARADRFAIKDSVLKEMPIPYSTLYEQEKISFFLDEITIIINLHQNKLKKLSSLKKAYLQNMFI
>NZ_JPTX01000004.1|WP_003726689.1|63962_65279_-|6-phospho-beta-glucosidase
MTKGIKIATIGGGSSYTPELIEGFIKRQDELPVRELWLVDVEAGREKLEIVGNLAKRMVEKAGVDMEVHLTLDREEALKDADFVTTQLRVGLLDARVKDERIPNSYGVVGQETNGPGGMFKGLRTIPVILDICKDMERLCPDAWLINFANPAGMVTEAVLRYSNQKKVVGLCNGPIGIERNIAETLGVDVSEIYVEFVGLNHMVFAKTVYHNGKDVTKDVVFKMTEDEAGSSLKNINATGWDKTFLRTLNMIPIDYLRYYWQTKQQLEDQARAYAEHGTRAEVVKKVEAELFELYKQEELAEKPKQLEQRGGAYYSEAACNLINSIYNDKRDIQIVNTRNNGAILDIDPDSAVETNCVITRQGPIPLASGRLPIAINGIIQEIKTFERLTAEAAVTGDYDKALLAMTINPLTPSESVAREMLDELLEAHKEYLPNFFK
>NZ_JPTX01000004.1|WP_003726690.1|65480_66233_+|MurR/RpiR-family-transcriptional-regulator
MLFLDKNLELNDTELDIYNYIVANLDKVVYMRIRDLATEAHVSTTTILRFCRKFGCNGFSEFRVKLQLYLEEQKLAQIDMADETTYIDFLKRTAQPEFKAQIQNAVEILRDRELVLFAGVGSSGVIAEYGAIYFSSLFTLALHIEDPLNHPFYHLSSKLSDKICMIAISVEGENEDIIRYIHQLKAQNCKVISITNSAKSTIARLSDANIAYYINKEMYQEANITSQLPALYTIENIAREIRTQIDKEKM

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NZ_JPTX01000004_1	1.2\|51126\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51126-51161	36	NZ_JPTX01000014.1	20275-20310	0	1.0

1. spacer 1.2|51126|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to position: 20275-20310, mismatch: 0, identity: 1.0

attacagtacaagcaagggttattgagttaaatatt	CRISPR spacer
attacagtacaagcaagggttattgagttaaatatt	Protospacer
************************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_JPTX01000004_1	1.2\|51126\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51126-51161	36	DQ003642	Listeria phage A006, complete genome	16672-16707	0	1.0
NZ_JPTX01000004_1	1.3\|51191\|35\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51191-51225	35	MH341453	Listeria phage PSU-VKH-LP041, complete genome	31167-31201	0	1.0
NZ_JPTX01000004_1	1.13\|51842\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51842-51877	36	NC_003216	Listeria phage A118, complete genome	18563-18598	0	1.0
NZ_JPTX01000004_1	1.13\|51842\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51842-51877	36	AJ242593	Bacteriophage A118 complete genome	18563-18598	0	1.0
NZ_JPTX01000004_1	1.1\|51060\|37\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51060-51096	37	KJ094023	Listeria phage LP-101, complete genome	9186-9222	1	0.973
NZ_JPTX01000004_1	1.6\|51386\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51386-51421	36	KJ094023	Listeria phage LP-101, complete genome	17910-17945	1	0.972
NZ_JPTX01000004_1	1.1\|51060\|37\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51060-51096	37	MT500540	Listeria phage LP-HM00113468, complete genome	35729-35765	2	0.946
NZ_JPTX01000004_1	1.12\|51777\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51777-51812	36	MH341453	Listeria phage PSU-VKH-LP041, complete genome	26132-26167	2	0.944
NZ_JPTX01000004_1	1.17\|52098\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52098-52133	36	KJ094022	Listeria phage LP-030-3, complete genome	38302-38337	2	0.944
NZ_JPTX01000004_1	1.18\|52163\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52163-52198	36	MH341453	Listeria phage PSU-VKH-LP041, complete genome	41996-42031	3	0.917
NZ_JPTX01000004_1	1.6\|51386\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51386-51421	36	NZ_LR134403	Listeria monocytogenes strain NCTC7974 plasmid 6, complete sequence	227438-227473	4	0.889
NZ_JPTX01000004_1	1.20\|52294\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52294-52329	36	FW590615	JP 2010534058-A/25: ANTIBIOTIC RESISTANCE FREE LISTERIA STRAINS AND METHODS FOR CONSTRUCTING AND USING SAME	3844-3879	4	0.889
NZ_JPTX01000004_1	1.20\|52294\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52294-52329	36	HI504184	Sequence 26 from Patent EP2147092	3844-3879	4	0.889
NZ_JPTX01000004_1	1.20\|52294\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52294-52329	36	AJ417489	bacteriophage U153 int gene for U153 integrase	3844-3879	4	0.889
NZ_JPTX01000004_1	1.18\|52163\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52163-52198	36	KJ094023	Listeria phage LP-101, complete genome	32760-32795	5	0.861
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	MN694189	Marine virus AFVG_250M578, complete genome	47879-47913	6	0.829
NZ_JPTX01000004_1	1.15\|51970\|33\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51970-52002	33	NC_022111	Prevotella sp. oral taxon 299 str. F0039 plasmid, complete sequence	1764852-1764884	7	0.788
NZ_JPTX01000004_1	1.15\|51970\|33\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51970-52002	33	NZ_CP038863	Campylobacter jejuni strain SCJK2 plasmid unnamed1, complete sequence	39302-39334	7	0.788
NZ_JPTX01000004_1	1.8\|51517\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51517-51552	36	AP013647	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C72-MedDCM-OCT-S41-C96, * SEQUENCING IN PROGRESS *	13305-13340	8	0.778
NZ_JPTX01000004_1	1.20\|52294\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	52294-52329	36	NC_019743	Microcoleus sp. PCC 7113 plasmid pMIC7113.08, complete sequence	4997-5032	8	0.778
NZ_JPTX01000004_1	1.3\|51191\|35\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51191-51225	35	NZ_CP013615	Clostridium perfringens strain JP838 plasmid pJFP838A, complete sequence	176358-176392	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	MK448625	Streptococcus satellite phage Javan738, complete genome	5960-5994	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	MK448449	Streptococcus satellite phage Javan356, complete genome	4490-4524	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	MK448636	Streptococcus satellite phage Javan749, complete genome	6112-6146	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	NZ_CP045037	Lactobacillus mali strain LM596 plasmid unnamed2, complete sequence	34734-34768	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	NZ_CP018177	Lactobacillus hordei strain TMW 1.1822 plasmid pL11822-1, complete sequence	11325-11359	9	0.743
NZ_JPTX01000004_1	1.21\|52359\|35\|NZ_JPTX01000004\|CRISPRCasFinder,CRT	52359-52393	35	NZ_CP018181	Lactobacillus nagelii strain TMW 1.1827 plasmid pL11827-1, complete sequence	63608-63642	9	0.743
NZ_JPTX01000004_1	1.8\|51517\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51517-51552	36	NZ_CP018048	Pseudomonas aeruginosa strain DN1 plasmid unnamed1, complete sequence	142304-142339	11	0.694
NZ_JPTX01000004_1	1.8\|51517\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51517-51552	36	NZ_AP015030	Pseudomonas putida strain KF715 plasmid pKF715A, complete sequence	410342-410377	11	0.694

1. spacer 1.2|51126|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to DQ003642 (Listeria phage A006, complete genome) position: , mismatch: 0, identity: 1.0

attacagtacaagcaagggttattgagttaaatatt	CRISPR spacer
attacagtacaagcaagggttattgagttaaatatt	Protospacer
************************************

2. spacer 1.3|51191|35|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to MH341453 (Listeria phage PSU-VKH-LP041, complete genome) position: , mismatch: 0, identity: 1.0

attaatgataagagcggaaagaaaactttcaaggg	CRISPR spacer
attaatgataagagcggaaagaaaactttcaaggg	Protospacer
***********************************

3. spacer 1.13|51842|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NC_003216 (Listeria phage A118, complete genome) position: , mismatch: 0, identity: 1.0

ctggttactcaactggcgacagtaatacacctcaat	CRISPR spacer
ctggttactcaactggcgacagtaatacacctcaat	Protospacer
************************************

4. spacer 1.13|51842|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to AJ242593 (Bacteriophage A118 complete genome) position: , mismatch: 0, identity: 1.0

ctggttactcaactggcgacagtaatacacctcaat	CRISPR spacer
ctggttactcaactggcgacagtaatacacctcaat	Protospacer
************************************

5. spacer 1.1|51060|37|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to KJ094023 (Listeria phage LP-101, complete genome) position: , mismatch: 1, identity: 0.973

caatgcttaaaccgagagcatcaaattgttcccatgc	CRISPR spacer
caatgcttaaacctagagcatcaaattgttcccatgc	Protospacer
************* ***********************

6. spacer 1.6|51386|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to KJ094023 (Listeria phage LP-101, complete genome) position: , mismatch: 1, identity: 0.972

cttcctactttttgacataaaaaataagccgagttg	CRISPR spacer
cttcctactttttgacataaaaaataagccgaattg	Protospacer
********************************.***

7. spacer 1.1|51060|37|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to MT500540 (Listeria phage LP-HM00113468, complete genome) position: , mismatch: 2, identity: 0.946

caatgcttaaaccgagagcatcaaattgttcccatgc	CRISPR spacer
caatgcttaacccaagagcatcaaattgttcccatgc	Protospacer
********** **.***********************

8. spacer 1.12|51777|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to MH341453 (Listeria phage PSU-VKH-LP041, complete genome) position: , mismatch: 2, identity: 0.944

gtccacatcgacaataaaaaacacattgtatcactt	CRISPR spacer
gtccacattgacaacaaaaaacacattgtatcactt	Protospacer
********.*****.*********************

9. spacer 1.17|52098|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to KJ094022 (Listeria phage LP-030-3, complete genome) position: , mismatch: 2, identity: 0.944

ttgttcgacggcttagacaaccatcacgcttcttta	CRISPR spacer
cttttcgacggcttagacaaccatcacgcttcttta	Protospacer
.* *********************************

10. spacer 1.18|52163|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to MH341453 (Listeria phage PSU-VKH-LP041, complete genome) position: , mismatch: 3, identity: 0.917

tataaaatattgcccaatgtgcggaaggagtttgga	CRISPR spacer
tataaaatattgtccaatgtgtggaaggagtttggg	Protospacer
************.********.*************.

11. spacer 1.6|51386|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LR134403 (Listeria monocytogenes strain NCTC7974 plasmid 6, complete sequence) position: , mismatch: 4, identity: 0.889

cttcctactttttgacataaaaaataagccgagttg	CRISPR spacer
cttcctactttttgacataaaaaataagccttgctc	Protospacer
******************************  *.*

12. spacer 1.20|52294|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to FW590615 (JP 2010534058-A/25: ANTIBIOTIC RESISTANCE FREE LISTERIA STRAINS AND METHODS FOR CONSTRUCTING AND USING SAME) position: , mismatch: 4, identity: 0.889

gtgtaattcttaattccgtattgattcgctagtttt	CRISPR spacer
ttataatccttaattccgtattgatttgctagtttt	Protospacer
 *.****.******************.*********

13. spacer 1.20|52294|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to HI504184 (Sequence 26 from Patent EP2147092) position: , mismatch: 4, identity: 0.889

gtgtaattcttaattccgtattgattcgctagtttt	CRISPR spacer
ttataatccttaattccgtattgatttgctagtttt	Protospacer
 *.****.******************.*********

14. spacer 1.20|52294|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to AJ417489 (bacteriophage U153 int gene for U153 integrase) position: , mismatch: 4, identity: 0.889

gtgtaattcttaattccgtattgattcgctagtttt	CRISPR spacer
ttataatccttaattccgtattgatttgctagtttt	Protospacer
 *.****.******************.*********

15. spacer 1.18|52163|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to KJ094023 (Listeria phage LP-101, complete genome) position: , mismatch: 5, identity: 0.861

tataaaatattgcccaatgtgcggaaggagtttgga	CRISPR spacer
cattgaattttgcccaatgtgcggaaggagcttgga	Protospacer
.** .*** *********************.*****

16. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to MN694189 (Marine virus AFVG_250M578, complete genome) position: , mismatch: 6, identity: 0.829

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
taataaaaaatgagggcttagaaaatgaaaaaatt	Protospacer
*  *.*** ******.***************** *

17. spacer 1.15|51970|33|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NC_022111 (Prevotella sp. oral taxon 299 str. F0039 plasmid, complete sequence) position: , mismatch: 7, identity: 0.788

agaaaaaaacatctttccaatttgttgttttgc	CRISPR spacer
gcaaaaaaacatctttcctatttgttttatcac	Protospacer
. **************** ******* * *..*

18. spacer 1.15|51970|33|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP038863 (Campylobacter jejuni strain SCJK2 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.788

agaaaaaaacatctttccaatttgttgttttgc-----	CRISPR spacer
agaaaaaaacatatttccaatt-----ttttccaaaaa	Protospacer
************ *********     **** *

19. spacer 1.8|51517|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to AP013647 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C72-MedDCM-OCT-S41-C96, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 8, identity: 0.778

actttagagaaagaaaaacaagaaaaag----taaaactg	CRISPR spacer
tctttagaaaaagaaatacaagaaaaaagatttaaa----	Protospacer
 *******.******* **********.    ****

20. spacer 1.20|52294|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NC_019743 (Microcoleus sp. PCC 7113 plasmid pMIC7113.08, complete sequence) position: , mismatch: 8, identity: 0.778

gtgtaattcttaattccgtattgattcgctagtttt---	CRISPR spacer
gtgtaattcttactgccgtattgatt---taactctgaa	Protospacer
************ * ***********   **..*.*

21. spacer 1.3|51191|35|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP013615 (Clostridium perfringens strain JP838 plasmid pJFP838A, complete sequence) position: , mismatch: 9, identity: 0.743

attaatgataagagcggaaagaaaactttcaaggg	CRISPR spacer
gaaattaaaaagagagcaaagaaaactttcaagga	Protospacer
.  * *.* ***** * *****************.

22. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to MK448625 (Streptococcus satellite phage Javan738, complete genome) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
gtatgaactatgaggacttagaaagtgaagacctg	Protospacer
 * **** ****************.****.*

23. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to MK448449 (Streptococcus satellite phage Javan356, complete genome) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
gtatgaactatgaggacttagaaagtgaagacctg	Protospacer
 * **** ****************.****.*

24. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to MK448636 (Streptococcus satellite phage Javan749, complete genome) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
gtctgaactatgaggacttagaaagtgaagacctg	Protospacer
 *.**** ****************.****.*

25. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to NZ_CP045037 (Lactobacillus mali strain LM596 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
ttaagaaatataaggacttagtaaatgaagttatg	Protospacer
**  *******.********* *******.  *

26. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to NZ_CP018177 (Lactobacillus hordei strain TMW 1.1822 plasmid pL11822-1, complete sequence) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
ttaagaaatataaggacttagtaaatgaagttatg	Protospacer
**  *******.********* *******.  *

27. spacer 1.21|52359|35|NZ_JPTX01000004|CRISPRCasFinder,CRT matches to NZ_CP018181 (Lactobacillus nagelii strain TMW 1.1827 plasmid pL11827-1, complete sequence) position: , mismatch: 9, identity: 0.743

ttttgaaatatgaggacttagaaaatgaaaaaaat	CRISPR spacer
ttaagaaatataaggacttagtaaatgaagttatg	Protospacer
**  *******.********* *******.  *

28. spacer 1.8|51517|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP018048 (Pseudomonas aeruginosa strain DN1 plasmid unnamed1, complete sequence) position: , mismatch: 11, identity: 0.694

actttagagaaagaaaaacaagaaaaagtaaaactg	CRISPR spacer
gaaaaagagaaagagaaacaagagaaagtaacaagc	Protospacer
.    *********.********.******* *

29. spacer 1.8|51517|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_AP015030 (Pseudomonas putida strain KF715 plasmid pKF715A, complete sequence) position: , mismatch: 11, identity: 0.694

actttagagaaagaaaaacaagaaaaagtaaaactg	CRISPR spacer
gaaaaagagaaagagaaacaagagaaagtaacaagc	Protospacer
.    *********.********.******* *

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

5. NZ_JPTX01000002

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

398661 : 409390

Listeria_phage(40.0%)

tail,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003728215.1\|398661_399114_-	ImmA/IrrE family metallo-endopeptidase	A0A059T7S0	Listeria_phage	4.0e-31	47.9
WP_003721740.1\|399119_399455_-	helix-turn-helix transcriptional regulator	A0A2H4JAR9	uncultured_Caudovirales_phage	4.0e-20	52.5
WP_003724946.1\|399671_400100_+	hypothetical protein	A8ATZ8	Listeria_phage	3.9e-12	45.7
WP_003728213.1\|400111_400528_+	hypothetical protein	NA	NA	NA	NA
WP_003728212.1\|400807_401197_+	DUF5072 family protein	NA	NA	NA	NA
WP_003721744.1\|401209_401722_+\|tail	phage major tail protein, TP901-1 family	A0A097PBF4	Streptococcus_pyogenes_phage	1.2e-47	62.7
WP_003721745.1\|401769_402072_+	hypothetical protein	NA	NA	NA	NA
WP_003740367.1\|402113_402518_+	hypothetical protein	A0A097PAX1	Streptococcus_pyogenes_phage	8.2e-20	43.7
WP_003731178.1\|402504_404373_+	membrane protein	A0A097PAU2	Streptococcus_pyogenes_phage	3.5e-20	45.8
WP_003731179.1\|404369_405188_+\|tail	phage tail family protein	Q9T1A6	Listeria_phage	2.2e-43	35.5
WP_003728209.1\|405197_406334_+\|tail	phage tail protein	A0A0B5D0G3	Listeria_phage	2.2e-46	33.8
WP_003721751.1\|406323_406623_+	hypothetical protein	NA	NA	NA	NA
WP_003731180.1\|406637_407213_+	hypothetical protein	NA	NA	NA	NA
WP_003728207.1\|407227_407707_+	hypothetical protein	NA	NA	NA	NA
WP_003728206.1\|407703_408240_+	hypothetical protein	NA	NA	NA	NA
WP_003728205.1\|408258_408681_+\|holin	holin family protein	Q2I8E7	Bacillus_phage	8.6e-28	46.3
WP_003724957.1\|408661_409390_+	N-acetylmuramoyl-L-alanine amidase	A0A0N9SGH1	Paenibacillus_phage	1.3e-34	42.5

Anti-CRISPR protein detection

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

6. NZ_JPTX01000008

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_JPTX01000008_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_JPTX01000008_1

85967-86128

Orphan

Consensus_repeat	Method
TTTTTTTATGGAAACAACGCTCCACTTTGTTACGCCTTGTATTGGAGTTCTAGGG	CRISPRCasFinder

1 spacers

WYL

The CRISPR arrays of NZ_JPTX01000008_1

>merge|NZ_JPTX01000008|1|85967-86128|CRISPRCasFinder
TTTTTTTATGGAAACAACGCTCCACTTTGTTACGCCTTGTATTGGAGTTCTAGGGGATTGGCTGTATTTAATAATTTGTGCTCCCCTTTTTGAGTTGTTCGTCCACTTTTTTTTATGGAAACAACGCTCCACTTCGTTACGCCTTGTATTGGAGTTCTAGGG

>NZ_JPTX01000008|1|1|85967-86128|CRISPRCasFinder
TTTTTTTATGGAAACAACGCTCCACTTTGTTACGCCTTGTATTGGAGTTCTAGGG	GATTGGCTGTATTTAATAATTTGTGCTCCCCTTTTTGAGTTGTTCGTCCACT
TTTTTTTATGGAAACAACGCTCCACTTCGTTACGCCTTGTATTGGAGTTCTAGGG

Protein	Signature genes	Signature genes Name	Protein_function
NZ_JPTX01000008.1\|WP_003726579.1\|88631_89924_-\|phosphopyruvate-hydratase	unknown	unknown	gnl\|CDD\|234617
NZ_JPTX01000008.1\|WP_041176875.1\|72621_76554_-\|DUF5110-domain-containing-protein	unknown	unknown	gnl\|CDD\|224418
NZ_JPTX01000008.1\|WP_003731281.1\|96249_97593_-\|RNA-polymerase-factor-sigma-54	unknown	unknown	gnl\|CDD\|274109
NZ_JPTX01000008.1\|WP_003726176.1\|81231_82140_+\|Rgg/GadR/MutR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NZ_JPTX01000008.1\|WP_003727924.1\|87503_88223_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|223669
NZ_JPTX01000008.1\|WP_003772391.1\|88355_88529_-\|hypothetical-protein	unknown	unknown	unknown
NZ_JPTX01000008.1\|WP_003739714.1\|86577_87321_-\|carboxylesterase	unknown	unknown	gnl\|CDD\|224561
NZ_JPTX01000008.1\|WP_003726178.1\|85091_85838_-\|carboxylesterase	unknown	unknown	gnl\|CDD\|224561
NZ_JPTX01000008.1\|WP_046671029.1\|82676_85058_-\|ribonuclease-R	unknown	unknown	gnl\|CDD\|273947
NZ_JPTX01000008.1\|WP_003723350.1\|82196_82661_-\|SsrA-binding-protein-SmpB	unknown	unknown	gnl\|CDD\|376590
NZ_JPTX01000008.1\|WP_031644129.1\|76568_77513_-\|lmo2445-family-class-3-internalin	unknown	unknown	gnl\|CDD\|380193
NZ_JPTX01000008.1\|WP_014929267.1\|68491_69388_-\|YafY-family-transcriptional-regulator	WYL	COG2378_WYL_CAS-I:CAS-III	gnl\|CDD\|225253
NZ_JPTX01000008.1\|WP_046671032.1\|90059_91592_-\|2,3-bisphosphoglycerate-independent-phosphoglycerate-mutase	unknown	unknown	gnl\|CDD\|235463
NZ_JPTX01000008.1\|WP_003727920.1\|94762_95809_-\|sugar-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225263
NZ_JPTX01000008.1\|WP_003727926.1\|86254_86488_-\|preprotein-translocase-subunit-SecG	unknown	unknown	gnl\|CDD\|224233
NZ_JPTX01000008.1\|WP_003726583.1\|93719_94730_-\|type-I-glyceraldehyde-3-phosphate-dehydrogenase	unknown	unknown	gnl\|CDD\|273675
NZ_JPTX01000008.1\|WP_014929793.1\|69432_70002_-\|YdcF-family-protein	unknown	unknown	gnl\|CDD\|99750
NZ_JPTX01000008.1\|WP_003726175.1\|77573_80849_-\|carbohydrate-binding-protein	unknown	unknown	gnl\|CDD\|224418
NZ_JPTX01000008.1\|WP_003731280.1\|97752_98679_-\|dipeptidase	unknown	unknown	gnl\|CDD\|366534
NZ_JPTX01000008.1\|WP_046671023.1\|71518_72571_-\|internalin-N-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|275380

Protein	Function_ID	Function_description	E-value
NZ_JPTX01000008.1\|WP_041176875.1\|72621_76554_-\|DUF5110-domain-containing-protein	gnl\|CDD\|224418	COG1501, COG1501, Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism].	0
NZ_JPTX01000008.1\|WP_003731281.1\|96249_97593_-\|RNA-polymerase-factor-sigma-54	gnl\|CDD\|274109	TIGR02395, RNA_polymerase_sigma-54_factor, RNA polymerase sigma-54 factor. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called sigma-54, or RpoN (unrelated to sigma 70-type factors such as RpoD/SigA). RpoN is responsible for enhancer-dependent transcription, and its presence characteristically is associated with varied panels of activators, most of which are enhancer-binding proteins (but see Brahmachary, et al., ). RpoN may be responsible for transcription of nitrogen fixation genes, flagellins, pilins, etc., and synonyms for the gene symbol rpoN, such as ntrA, reflect these observations [Transcription, Transcription factors].	0
NZ_JPTX01000008.1\|WP_003726176.1\|81231_82140_+\|Rgg/GadR/MutR-family-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	6.81002e-08
NZ_JPTX01000008.1\|WP_003727924.1\|87503_88223_-\|alpha/beta-hydrolase	gnl\|CDD\|223669	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only].	3.44979e-18
NZ_JPTX01000008.1\|WP_003726579.1\|88631_89924_-\|phosphopyruvate-hydratase	gnl\|CDD\|234617	PRK00077, eno, enolase; Provisional.	0
NZ_JPTX01000008.1\|WP_003739714.1\|86577_87321_-\|carboxylesterase	gnl\|CDD\|224561	COG1647, COG1647, Esterase/lipase [General function prediction only].	7.53915e-122
NZ_JPTX01000008.1\|WP_003726178.1\|85091_85838_-\|carboxylesterase	gnl\|CDD\|224561	COG1647, COG1647, Esterase/lipase [General function prediction only].	2.48951e-137
NZ_JPTX01000008.1\|WP_046671029.1\|82676_85058_-\|ribonuclease-R	gnl\|CDD\|273947	TIGR02063, Ribonuclease_R, ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA].	0
NZ_JPTX01000008.1\|WP_003723350.1\|82196_82661_-\|SsrA-binding-protein-SmpB	gnl\|CDD\|376590	pfam01668, SmpB, SmpB protein.	2.29197e-92
NZ_JPTX01000008.1\|WP_031644129.1\|76568_77513_-\|lmo2445-family-class-3-internalin	gnl\|CDD\|380193	NF033189, internalin_A, class 1 internalin InlA. Internalins, as found in the intracellular human pathogen Listeria monocytogenes, are paralogous surface or secreted proteins with an N-terminal signal peptide, leucine-rich repeats, and usually a C-terminal LPXTG processing and cell surface anchoring site. See PMID:17764999 for a general discussion of internalins. Members of this family are internalin A (InlA), a class 1 (LPXTG-type) internalin.	6.34772e-06
NZ_JPTX01000008.1\|WP_014929267.1\|68491_69388_-\|YafY-family-transcriptional-regulator	gnl\|CDD\|225253	COG2378, COG2378, Predicted transcriptional regulator [Transcription].	7.74293e-69
NZ_JPTX01000008.1\|WP_046671032.1\|90059_91592_-\|2,3-bisphosphoglycerate-independent-phosphoglycerate-mutase	gnl\|CDD\|235463	PRK05434, PRK05434, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase.	0
NZ_JPTX01000008.1\|WP_003727920.1\|94762_95809_-\|sugar-binding-transcriptional-regulator	gnl\|CDD\|225263	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription].	5.49226e-92
NZ_JPTX01000008.1\|WP_003727926.1\|86254_86488_-\|preprotein-translocase-subunit-SecG	gnl\|CDD\|224233	COG1314, SecG, Preprotein translocase subunit SecG [Intracellular trafficking and secretion].	6.04836e-13
NZ_JPTX01000008.1\|WP_003726583.1\|93719_94730_-\|type-I-glyceraldehyde-3-phosphate-dehydrogenase	gnl\|CDD\|273675	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I. This model represents glyceraldehyde-3-phosphate dehydrogenase (GAPDH), the enzyme responsible for the interconversion of 1,3-diphosphoglycerate and glyceraldehyde-3-phosphate, a central step in glycolysis and gluconeogenesis. Forms exist which utilize NAD (EC 1.2.1.12), NADP (EC 1.2.1.13) or either (1.2.1.59). In some species, NAD- and NADP- utilizing forms exist, generally being responsible for reactions in the anabolic and catabolic directions respectively. Two Pfam models cover the two functional domains of this protein; pfam00044 represents the N-terminal NAD(P)-binding domain and pfam02800 represents the C-terminal catalytic domain. An additional form of gap gene is found in gamma proteobacteria and is responsible for the conversion of erythrose-4-phosphate (E4P) to 4-phospho-erythronate in the biosynthesis of pyridoxine. This pathway of pyridoxine biosynthesis appears to be limited, however, to a relatively small number of bacterial species although it is prevalent among the gamma-proteobacteria. This enzyme is described by TIGR001532. These sequences generally score between trusted and noise to this GAPDH model due to the close evolutionary relationship. There exists the possiblity that some forms of GAPDH may be bifunctional and act on E4P in species which make pyridoxine and via hydroxythreonine and lack a separate E4PDH enzyme (for instance, the GAPDH from Bacillus stearothermophilus has been shown to posess a limited E4PD activity as well as a robust GAPDH activity). There are a great number of sequences in the databases which score between trusted and noise to this model, nearly all of them due to fragmentary sequences. It seems that study of this gene has been carried out in many species utilizing PCR probes which exclude the extreme ends of the consenses used to define this model. The noise level is set relative not to E4PD, but the next closest outliers, the class II GAPDH's (found in archaea, TIGR01546) and aspartate semialdehyde dehydrogenase (ASADH, TIGR01296) both of which have highest-scoring hits around -225 to the prior model. [Energy metabolism, Glycolysis/gluconeogenesis].	0
NZ_JPTX01000008.1\|WP_014929793.1\|69432_70002_-\|YdcF-family-protein	gnl\|CDD\|99750	cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.	1.15995e-39
NZ_JPTX01000008.1\|WP_003726175.1\|77573_80849_-\|carbohydrate-binding-protein	gnl\|CDD\|224418	COG1501, COG1501, Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism].	0
NZ_JPTX01000008.1\|WP_003731280.1\|97752_98679_-\|dipeptidase	gnl\|CDD\|366534	pfam01244, Peptidase_M19, Membrane dipeptidase (Peptidase family M19).	3.47895e-120
NZ_JPTX01000008.1\|WP_046671023.1\|71518_72571_-\|internalin-N-terminal-domain-containing-protein	gnl\|CDD\|275380	sd00033, LRR_RI, leucine-rich repeats, ribonuclease inhibitor (RI)-like subfamily. A leucine-rich repeat (LRR) is a structural protein motif of 20-30 amino acids that is unusually rich in the hydrophobic amino acid leucine. The conserved eleven-residue sequence motif (LxxLxLxxN/CxL) within the LRRs corresponds to the beta-strand and adjacent loop regions, whereas the remaining parts of the repeats are variable. LRRs fold together to form a solenoid protein domain, termed leucine-rich repeat domain. Leucine-rich repeats are usually involved in protein-protein interactions.	9.36641e-09

>NZ_JPTX01000008.1|WP_003726178.1|85091_85838_-|carboxylesterase
MKITPPQPFLFEKGKRAVLLLHGFTGSSADVRILGRFLQENNYTCYAPQYRGHGVSPDLLLKTGPNDWWEDVLEAYDHLKSLGYTEIAVAGLSLGGLFSLKLGFSRPLKGIIAMSTPTRMDSSSPIIQGFLDYVRNYKKLEGKTPEQIDAEMVAYKDAPMNTIAKLKDEINGVVAEIDMIYAPIMVVQGEKDDMVDVSGAQLIYDTVESTKKELHWFKESGHVITLDKERKEVNQAILTFLDSLDWQE
>NZ_JPTX01000008.1|WP_046671029.1|82676_85058_-|ribonuclease-R
MEQKQMEEKIMNLLTSAPDKTFALEDLEIEIALNNADDFKLMVKALVKLEDSGTIVRSRKNRYALPEKMDLVKGTFRAHERGFGFVLPEEKEMDDIFIPPNEVKDAMNGDLVFATITKRKGDNLAEGTIKKIVERKTTQIVGTYMEDLAGTPIVMPDDKRLFGEVEIDLEDGLKPVDGHKVIVELTEYATGHARARGVVKSIIGHRNDPGVDILSIIHKHGISIGFPEEVMEQVSKAPDVVDDSDIGNRRDLRDQMIITIDGADAKDLDDAVTVTQLSNGNWKLGVHIADVTHYVTEGSPLDVEAQERGTSVYLVDRVIPMLPHKLSNGICSLNPQVDRFTMSCEMEIDEEGHVVNHEIFESIIKTTERMTYTDVNDILVEKDEALREKYAPIVPMLEKMQHLAEILHRKREKRGAIDFDFKEARVVVDEDGHPEAVVMRERSAGEHLIEEFMLAANETVAEHFHWMDVPFIYRIHEDPKEDKLARFFEFITNFGLIVKGTANDIHPAALQQVLEEVKGKPEEMVVSTVMLRSMQQAKYDTVSAGHFGLSTDFYTHFTSPIRRYPDLIVHRLIREYLINGDVRPETLEKRAEELPEIAEHSSKMERRAVEAERETDELKKTEFMVDKVGERFIGIISSVTNFGLFIELPTTIEGLVHVSAMKGDYFKFHQNQLAMIGERTGQIYRIGDEVEVEVTKVDVDAREIDFALRSEGKPGPVSDKQKRQREKPIDKTRNFKSNQKKGRNKRSAGKSEDVKPKSERKEDEWHTKPKKKKKKKPFYQGVAKESPKKKKRR
>NZ_JPTX01000008.1|WP_003723350.1|82196_82661_-|SsrA-binding-protein-SmpB
MPKGDGKLVAQNKKARHDYAIEETFEAGIVLQGTEIKSVRNARVNLKDSYARIDKGEIFLHNMHISPYEQGNRYNHDPLRTRKLLLHKKQISRLIGETKESGYSIVPLKMYIKDGYAKVLIGVARGKKKYDKRQDLKQKEAKRDIERAFKERQQ
>NZ_JPTX01000008.1|WP_003726176.1|81231_82140_+|Rgg/GadR/MutR-family-transcriptional-regulator
MQNIGDTLKFIRKSKNLTQQETCTNALSRSNYQKIENNKIMPSMDRFIQILLNFNMTLEEFEFVKRDFTPSPKENILYLYSKIITSSETDMILNVISKCDDYLENHTDIFISDIKASLEGILLAEKEHNFELAREKVTYIWDRLSEADELFWNDILILRNIFFIFENETAQHIVNRLISQLKKYRYLYPTLSIEISLHVNRATYLILDEEYELALHYIELSIKIAKHNHYYLQFCMAIAKKGIVLYKLGQKQKGKHFMQRALRVAKVLEEERILNGIKNEIDYFLHDELQNLSLNEFTKIDI
>NZ_JPTX01000008.1|WP_003726175.1|77573_80849_-|carbohydrate-binding-protein
MKRKGKKSSLIFILTILIFSCLSGFGTNVFAMDGEYHSPYGDDDLYTVQPTERSPRDPKAGEDVTLNITTWPIEDGQNVWVEWTKNGVAQENVTAAYDYNSGNNTYWKADLGKFEKGDEITYTTKGSTDGGTAYESGPFTFYVTDWEYVQDVSSVVDNGDSITLNMTATAGEFTPKLYLSFEDLDTLRMELSPTGKETGHAGKTGYTVDDGADKVTVTTEDLRVEIQKSPYRMEVYQADGTLLTSEYTTANSLGWLTDGKNVINQYQNNFMTPSDEAFYGFGERYDTINQRGKDVETYVYNEYQDQAQTERTYLAVPFFVSANKYGMYVNSDFHSQFQMASKVEDKYSFVLDNDGDMTNMLDYYVISGKDQNDIVNNYTDITGKTTLLPKWAFGLWMSANEWDRESDVSSALSNAKANDIPATGFVLEQWSDEETYYIWNNATYTAKKNGEAFSYDDFTFNGKWTDPKAMVDSVHDAGMNIVLWQVPVLKDDGTVYEQRDNDEAYMISQGYSADDGTGAPYRVPASQWFGNGILLDFTNKDAVDWWTSQREYLLTEVGIDGFKTDGGEMVWGRDTTFSNGEKGQEMRNRYPTDYVSSYFDFAKSINPEAVSFSRSGTSGAQKSGIYWSGDQTSTFDSFQASLKAGLSASTSGVSYWAWDMAGFTGDYPTAELYKRATAMAAFAPIMQFHSEKSDPSPSEERSPWNAVARTGDETILPTFQKYLYTRMNLLPYIYTAAKDTADNGKSMMRQMAMDYPEDINARDLDEQYMFGDDLLVAPIVQEGQTEKEVYLPEGEWVDLWNGGIHPGGETISYYADVDTLPVFAKAGAIIPMNMTDGYQLGQNVGNDLKSYDNLTFRVYPSGDSEYSFYDDVNGGEMRDISVSEDFANEKVSVDLPAMADETTMQVFSTEPTSVTIDGADVAKADTLDAFNEATTGYYYDTVQNLTYVKAAAKDAKQAIVLNGVNHAPYEAEFAHLTNVSTASDHAGYTGTGFVAGFDAEKEAVEFDVDAVDGASDYTMEVRYSAGVEDATRTVYINGKKQQITLPKTADWDTWSTIEVPVTLQAGNNQVVFDFEADDTAGINFDHVVFKK
>NZ_JPTX01000008.1|WP_031644129.1|76568_77513_-|lmo2445-family-class-3-internalin
MKKIIGLAFIAFCCMLFAPTIKAQADTVPLPAPIIEAFPVEAIAEAIAGELDKDSVNDTITQADLDTMTLIPLPSLGLTGEDLSVLNNEVFTNAIELAIWSNNIGELPDLSDALPALENIEANGANITLFPDANYPNLTNADLSQNNFGFNIPKFVGMEGLVSINMEDAGLSGYVAEDIWMNMPNLDSLLLNENHLISIPEDIFLSEQLSTHSFANQTATYPHTTIKQGENLEVFVPFIYQALDFIAPSRHDLIIIKDNGRTLYEPPYPTYDGSYMYKIETAGLQPGEHLLEISLGYNSGEYTGWYDFPVTITE
>NZ_JPTX01000008.1|WP_041176875.1|72621_76554_-|DUF5110-domain-containing-protein
MKKGMKQVCVSMAVVPLVWLNLGITQPLQVEVKAEETKEKEVKQEANTGAAKQLSKEEYAKLSAEEGLGNVLEATVTDNVITLKIDNGDEAEDDYLEISPLANNLLKVNLRPRNIENSPSTPMIDPNATFTAIGATIDLESDPMIISTDECTLEIAKEPARMTFKDKNGKTLLSESADGGIFDGGVRFKRGASDHVYGAYGISFSDGDLGMERDNTAADSNKTAQAGQQGNAGGPFMWSTAGYGLLVDSDGGYPYSVSDEEKLEFYYGDTVVEGRRYVKENVEMYLMSGEPEEIMSSYADVTGHTPMMPKWSLGFSNFEWGTNETEFRENINTYRAKGIPIDSFAFDYDWKFYGDPTYGGDYGEFAWNTENFPSAKDTTLKSDMDALGVKMIGITKPRVVTNLEDGTATQQGKDAEANGYWYPGQSAYEDYAFPVTVRSIDPYNEDERNWWWSHSEDALDKGIVGWWNDETDKVSSNGADYWFGNFTTGFTSEAMYEGQRDYTNERVWQTGRTFYPGAQRYSTSTWSGDIGVQWKKGEVIDWANGMQEQPSTMLSTINLGQTKWGMDTGGFNANSGQVLNPDPELYSRWMEFSSLVPVFRTHGNQNQQRQPWFYGGTAEEVAKSSMTWRYSMIPYMYAYERQAYDSGVGLVQPLTFDNPTDENVVNLTDEWMFGDGLLAAPVLEEGAGSRDIYLPAGTWIDYNRGDVYEGNQTISYEVNDDDWTDVPMFVKQGAIMPMQQPQNYVGESAVKTIYLDTFASDKETSFTHYDDDGKSFDYEKDTYLKQKMTTSKTADTSTFTIGAKEGSYKADTENYIVKLHGNAAESVQVNGADSKVYDDLSALETADGSGYAVGSDVYGAVTYVKVPAQADADTVITTSGSASVVQTGTYEMETGSNFADTVADKPVAEKTYVDGYDKDGAGTTIYANVKDSGDYNVDLTYKNASADNQSLSIFVNGDYVKQTTLKPNTDWSVQSEALPLSAGKNSISYKVVTDTGDKADQVSLDKVNIGFTPTVAKVEAEEADLAGTLKVANDHWFYSGEGFVGGFGAAGDEIKFEVDVPADGEYVLNTRTANGTGMPQTLDLYTNGDYNSRVTFPSEGENWNIWSDTEKAVNLKAGTNKITFLRDGETTGNVNIDRILVSAEPINSPVQSEVNLLDNGGFERDAAATTNWVESHPDGQDKAYGVDSGSGVNPPESPAFGKQSAYFYLPGAYKQTLAQQIAVPVNNANYDVEAWVKVSNDDAAKAQMTVNNYDSSDGKTIDLVADDVWHYVTMKDVKVTTGNINTSFQMDSPGGTSIHIDNVRVMPSAE
>NZ_JPTX01000008.1|WP_046671023.1|71518_72571_-|internalin-N-terminal-domain-containing-protein
MKNLFRLFLVFSIVIIGVVSFKAIDASANETDVYPLPARIIDVFPDENLAEDMVENFHKTDVTDVITQDDVDSVKDLNLGYYGDYITDENLQMLGNAYFTNVTSVMIYPTQTMFTSFPDLPTLPKLDILTAGYSGEIPAASITVPDYQNYPELKTLNFSKRTIVGGLPDFSNIPKLENLVMDNCGLTSEDVPDFTNLKNLQVVRFEENQFIIEMTDFTHLDSLVSMDLSYNYLNVLPPTIVDKITVVAQIGTLPDQNVAFGEDTNVTLPIYTQMNDLEEINGLQEVWYYDADGQELYYSTKIDYDEETQKIIVPTSNLDRGEYQIYIDFNGNASSSEEEVMHYSVKITIN
>NZ_JPTX01000008.1|WP_014929793.1|69432_70002_-|YdcF-family-protein
MRSLRKIVIILIIIGFMYLLIVAAFMFSGSRTKPSENADTVLILGAKVNGNPAVPSLVLQERLDAAVAYLNEYPKAKVIVSGGQGADESATEASVMEEYLVNEGIARKRIETETKSKRTEENIKYSNAKFNLGKTVIVTSDYHMYRALMLAKRQGIDASGLPATSKTFAKYKGMMREVLSITYAWVFDH
>NZ_JPTX01000008.1|WP_014929267.1|68491_69388_-|YafY-family-transcriptional-regulator
MKLERILAILVMILERKVLASELAEKFEVSTRTIYRDMDTLLYAGFPVVALPGKNGGFTMLDTYKLATFTFSEAEKQILLEALEARSEFMLNDSHEILREKITLLQTEKPTSKHIFFDSATQHRQQIEAEVKRKVAYIQKAFTTNKQLKITYIAMSGAETTREISPQKLNLMDGSWYLEVYCHKRAAIRHFKLTRITSLKEIGKAIMYVEETEHQPAEMKKIVLEFPKNQLGKLLDYFLQEEMETGDDYVRVSFFYDLERNIIPFLLMFGSAVKILEPASLQKDYKSEVEKLYFNLNC
>NZ_JPTX01000008.1|WP_003727926.1|86254_86488_-|preprotein-translocase-subunit-SecG
MSTVLTVLLIIVSVLLITVIILQPGKSAGLSGAISGGAEQLFGKQKARGLELILHRTTIVLSVVFFAILIALAYFVQ
>NZ_JPTX01000008.1|WP_003739714.1|86577_87321_-|carboxylesterase
MSADRSFTLKAGNRAVLLLHGFAGTTEDVRELGEILAENGYTVHAPNFRGHGDEPAIFLKTTPEMWYEDAVAGYRQLEKDGYNEIAIVGVAMGGVFALKMAESFSPKAIVPLCANVNRKMRYIPIENYLTKQLKKQGIVEQEADQMLKNYLPEIDIMTEARATFYKNVARDIEKIHVPTMIGQGCQDEEIDADNANYIFKHIHTNDKQLCFYAGSGHDIVNDCEKDILEEDLIYFLDDLVWLEEKVV
>NZ_JPTX01000008.1|WP_003727924.1|87503_88223_-|alpha/beta-hydrolase
MIAEINGINLFYQIIGKGEPILLIHGNGQNHRSLKRMIDDLSTNHQVIAVDSRAHGKSEAGNTPLDFEVMALDMLSLLDYLKIDKYKVIGYSDGGIVALVMGKMQPNRQIASVVIGTNYHVNQIRFLPDLFCRVAYGAAFLLAPFSRFFERMKRQLALTIYHPHMSEADLQKISAPLLAVVGEYDLISSKDTKKMVHSVQHGEMVIVRNGLHYLPRQKPKQLLQLIHSFFSNLSAEIHK
>NZ_JPTX01000008.1|WP_003772391.1|88355_88529_-|hypothetical-protein
MLMKVKNSQASKVLETPKIKDAVVHEKSHPLAEKHSVQKKIINADMPQQQFHRRLMK
>NZ_JPTX01000008.1|WP_003726579.1|88631_89924_-|phosphopyruvate-hydratase
MSIITEVYAREVLDSRGNPTVEVEVYTEAGAFGRALVPSGASTGEYEAVELRDGDKARYLGKGVLKAVENVNDIIADKIIGFDVTDQIGIDKAMIELDGTPNKGKLGANAILGVSLAAARAAADELGVHLYEYLGGVNGKVLPVPMMNILNGGEHADNNVDVQEFMVMPVGAPNFKEALRMGAEILHALKAVLKGKGLNTGVGDEGGFAPNLKSNEEALETIMQAIKDAGYKPGEEVKLAMDAASSEFYNRETGKYELKGEGVTRTSEEMVTWYEEMITKYPIISIEDGLDENDWDGFKLLTERIGDRVQLVGDDLFVTNTTKLKEGIEKGIANSILIKVNQIGTLTETLDAIEMAKRAGYTAVISHRSGETEDSTIADIAVATNAGQIKTGAPTRTDRVAKYNQLLRIEDNLADLAEYHGNETFYNLKK
>NZ_JPTX01000008.1|WP_046671032.1|90059_91592_-|2,3-bisphosphoglycerate-independent-phosphoglycerate-mutase
MSKSPVAIIILDGFGKRAETVGNAVAQANKPNFDRYWANFPHGELKAAGLDVGLPEGQMGNSEVGHTNIGAGRIVYQSLTRIDKAIEEGEFQENKALNNAFTHTKENNSDLHLFGLLSDGGVHSHINHLVALLETAKDKGVKNVYIHAFLDGRDVAPQSSLEYLETLQKAISDLNYGAIATVSGRFYAMDRDKRWERVEKAYKAIVNAEGDKFEDPIELVKASYANDKNDEFVVPAIITKDGKPVATVKDNDAVIFFNFRPDRAIQLSNAFTDKEWDHFDRGANHPKNIKFVTMTLYNPSIDAEVAFEPIEMKNVIGEVLSNEGLSQLRIAETEKYPHVTFFMNGGRNEEFPGENRILINSPKVETYDLQPEMSAYEVTDALVEDIKNDKHDAIILNFANPDMVGHSGMLEPTIKAIEAVDENLGRVVDLILEKGGSAIIFADHGNSETMSTPEGKPHTAHTTVPVPVIVTKKGVTLREGGRLADVAPTMLDLLGVKKPAEMTGESLIQK
>NZ_JPTX01000008.1|WP_003726583.1|93719_94730_-|type-I-glyceraldehyde-3-phosphate-dehydrogenase
MTVKVGINGFGRIGRLAFRRIQNVEGIEVVAINDLTDAKMLAHLLKYDTTQGRFDGEVEVHDGFFNVNGKEVKVLANRNPEELPWGDLGVDIVLECTGFFTAQDKAELHIKAGAKKVVISAPATGDMKTIVYNVNHETLDGTETVISGASCTTNCLAPMAKVLEDKFGVVEGLMTTIHAYTGDQNTLDAPHPKGDFRRARAAAENIIPNTTGAAKAIGEVLPTLKGKLDGAAQRVPVPTGSLTELVTVLDKKVTVDEVNAAMEAASDPETFGYTSDQVVSSDIKGMTFGSLFDETQTKVLTVGDQQLVKTVAWYDNEMSYTAQLVRTLEYFAKIAK
>NZ_JPTX01000008.1|WP_003727920.1|94762_95809_-|sugar-binding-transcriptional-regulator
MSDLINIQKKLLPDVLMIMQKRYQILRSIYFSEPVGRRTLAGMLGMSERVLRGEVEFLKAQGLVEIASSGMTVTKEGLVVFRDLENVMNQLSGLHSMEEQLAKKLQIKKCLVVQGDSDDTPWVREEMGRVAVEQLDMALTEKRNIVAVMGGSTMATVAEMMTTDFAKGRELLFVPGRGGIGEDLDNQANTICDKMATKTNTKHRVLYVPEQLGEEAYRSLLKEPAIQEGLRLVQSANAIILGIGDALAMAKRRHTGEDVLEKIIRRKAVGEAFGYYFDEQGEVVHKVPTFGLQFEDLAQIPHIIAVAGGTSKAKAIKSYMKSAPKNTILITDEGAAKSLLKGSNTLLK
>NZ_JPTX01000008.1|WP_003731281.1|96249_97593_-|RNA-polymerase-factor-sigma-54
MRLESNFVQKQQQKQSQKLNMTQQLSQSIAMLQFATADLVAFLEDKALENPLIEVIPGSDFATDFSYSSRKSAGSSDDTDWLEQIADNKLTLADALKEQLHLMDVTQTQKIIVLYLIESLNDNGYLQIDLKDVSAALLMDDSSVLEGLEILQSMEPAGVGARDARECILLQIERSPDAPYIAYDVIQKFFTEFAEKKWKKIATEMDVSLQDIQEVSDYIQTLNPKPGSEFESERVQYVVPDLILLQHEDEFAVSLAKQFLPQVRFQEAYYETMRATEEKDVAQFLREKAGEFDWIKKGIEQRENTLQRVGEAIVNHQKAYFLDNSAHLQPLTLKEVAEELGVHESTVSRAVNGKYMETTNGVYELKRFFASGLQKKSSENENTGDISSTTIKKLVQEFVAAEDKLKPLSDQKIVDMLAEKEIQVSRRAIAKYRLELNIPSSSKRKRF
>NZ_JPTX01000008.1|WP_003731280.1|97752_98679_-|dipeptidase
MRVIDTHCDALYKLQAGKGKYTFQDAEELDVNFERLIEAKMLLQGFAIFLDEDIPVEHKWKKAVEQVNIFKQHVLHKGGIIHHVKKWCDLENLPEDKIGAMLTLEGIEPIGRDLDKLTQLLDGGVLSVGLTWNNANLAADGIMEERGAGLTRFGKDIIHLLNERKVFTDVSHLSVKAFWETLEQAEFVIASHSNAKAICSHPRNLDDEQIKAMIEHDAMIHVVFYPLFTTNNGVADTEDVIRHIDHICELGGLKNIGFGSDFDGIPDHVKGLEHAGKYQSFLETLEKHYTKEEVEGFASRNFLNHLPK

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

110169 : 118011

Streptococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003725407.1\|110169_111141_-	DNA-binding protein WhiA	Q7AWZ3	Streptococcus_phage	5.2e-52	39.4
WP_003731212.1\|111148_112117_-	YvcK family protein	A1IMD5	Streptococcus_phage	1.8e-68	43.6
WP_003722606.1\|112118_112994_-	RNase adapter RapZ	A0A0R8VB27	Thermobifida_phage	1.9e-08	29.7
WP_003725409.1\|113101_114832_-	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	9.5e-174	53.1
WP_003741152.1\|114873_115935_-	galactose mutarotase	NA	NA	NA	NA
WP_003727909.1\|115951_116935_-	UDP-glucose 4-epimerase GalE	A0A2K9L5H6	Tupanvirus	1.5e-51	38.1
WP_003722610.1\|117051_118011_-	thioredoxin-disulfide reductase	G3MA85	Bacillus_virus	2.0e-88	53.7

Anti-CRISPR protein detection

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

7. NZ_JPTX01000016

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CRISPR-Cas detection and classification

Crispr_ID: NZ_JPTX01000016_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_JPTX01000016_1

215-789

Orphan

Consensus_repeat	Method
ACTGAACTNGTATCAAAATNACTTACATC	CRT

7 spacers

The CRISPR arrays of NZ_JPTX01000016_1

>merge|NZ_JPTX01000016|1|215-789|CRT
ACTGAACTGGTATCAAAGGTACTTAAATCAAGCTTCTCCAGTTTTTCATTATCAGAAAACATGGCAGCCATATTAGTTACTGAACTCGTATCAAAATTACTTACATCTAACGCTTCAAGACTAGTACAACCAGCAAACATGGCACGCATATCAGTTACTAAGCTCGTATTAAAATTACTTACATCCAACTTCTCAAGGGCGCTACAATTTCTAAACATTTGAACCATTGCAGTAGCGGAACTGGTATCGAAATTACTTACATCTAGTTTCTTCAGTTTTTCACAGCCATTAAACACTCTATACATATCAGTAACTGAACTCGTATCAAAATGACTTACATCCAGCTCTTCAAGACTAGTACAATCTTCAAACATGGCATACATATTAGTTACTGAACCGGTATCAAGGTTGCTTACATCCAGCACCTCAAGGTTTCTATTATCATAAAACATGTAAGACATATTAGTTACTGAACTCGTATCAAAATGACTTACATCCAGTTCCTCAAGTGCCCTACAGCTGTTAAACATATCCCACATAGTAGTTACCGCACTAGTATCAAGACCACTCAAATC

>NZ_JPTX01000016|1|1|215-789|CRT
ACTGAACTGGTATCAAAGGTACTTAAATC	AAGCTTCTCCAGTTTTTCATTATCAGAAAACATGGCAGCCATATTAGTT
ACTGAACTCGTATCAAAATTACTTACATC	TAACGCTTCAAGACTAGTACAACCAGCAAACATGGCACGCATATCAGTT
ACTAAGCTCGTATTAAAATTACTTACATC	CAACTTCTCAAGGGCGCTACAATTTCTAAACATTTGAACCATTGCAGTA
GCGGAACTGGTATCGAAATTACTTACATC	TAGTTTCTTCAGTTTTTCACAGCCATTAAACACTCTATACATATCAGTA
ACTGAACTCGTATCAAAATGACTTACATC	CAGCTCTTCAAGACTAGTACAATCTTCAAACATGGCATACATATTAGTT
ACTGAACCGGTATCAAGGTTGCTTACATC	CAGCACCTCAAGGTTTCTATTATCATAAAACATGTAAGACATATTAGTT
ACTGAACTCGTATCAAAATGACTTACATC	CAGTTCCTCAAGTGCCCTACAGCTGTTAAACATATCCCACATAGTAGTT
ACCGCACTAGTATCAAGACCACTCAAATC

>NZ_JPTX01000016.1|WP_060587054.1|1581_3735_-|BspA-family-leucine-rich-repeat-surface-protein
MKKFSMRVVLIISVLFIALGNANVSIAQERDTTNKLPEEELSSLDTSNIIAEEVAQEKPAEVEQLEEIPTTDELMQNPDVREQPVADSDNPDLTVVSSGAYWTIYRNTVNGEYSLHMFGNVPSSIPSAWKSYLSNIKHIEIEEATLTGSFETYFKSKIGGFLALESVRIERSNLSGVTSFREAFFNPILQKVIIRDNDYPTVPSLLTMESMFENSYNLTELDVSGLDTSAVTNMKNMFYKCSVLKELDLSNWDTSAVNNMNSMFGYCESLEKLNVSNFDTSSVNDMHYMFRDCKALEKLDVSDFDTSSVTTMYGMFVNSTSLKELDVSNFNTSSVTTMQGMFSTCRALEKLDVSNFDTSSVTTMLGMFAACNSLEELDVSNFDTSSVTNMYSMFADCELLEKLDVSHFDTSSVTDMRTMFNNCQSLEKLDVSNFDTSLVTNMQGMFQNCTALKSLYLDNFTTAKTMTDMFTGTTSLTYLFVSHNLQSFYGLANTNWYDEKNWVQFSNLSQLQTYHRNQSEPTGYRKGAFLSLTMDAMGGEFEDAEEQKVQNKISGEYWEEVIPVKEGHYFDGWYLDQNFTNKFDFSLPAAVSTTIYAKWVENYTVVIPASISLNETSELKVEGINRGSKTLSVGLNQLATSISESNKLTLANTADTTVQCLAPLSWDGSENNPENAILTLAPGSEITEGDAVVEIESPENIQAGKYTGNLVFSINYE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

8. NZ_JPTX01000005

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

0 : 5762

Listeria_phage(100.0%)

integrase

attL 886:899|attR 6497:6510

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_143185452.1\|0_220_-	SAM-dependent DNA methyltransferase	A8ATD5	Listeria_phage	1.4e-34	100.0
WP_009929542.1\|356_509_-	hypothetical protein	A8ATD4	Listeria_phage	1.5e-19	100.0
WP_023548967.1\|743_929_-	hypothetical protein	A0A059T7Z3	Listeria_phage	4.4e-29	98.4
886:899	attL	NA	NA	NA	NA
WP_015987310.1\|931_1174_-	hypothetical protein	A8ATD2	Listeria_phage	1.4e-43	100.0
WP_009929536.1\|1175_1379_-	helix-turn-helix transcriptional regulator	A0A059T5F8	Listeria_phage	3.1e-28	100.0
WP_003730994.1\|1445_1649_+	hypothetical protein	NA	NA	NA	NA
WP_025370566.1\|1796_2120_-	hypothetical protein	NA	NA	NA	NA
WP_025370565.1\|2185_2503_+	hypothetical protein	NA	NA	NA	NA
WP_025370564.1\|2961_3285_+	helix-turn-helix transcriptional regulator	A0A059T6G1	Listeria_phage	5.5e-35	71.0
WP_025370563.1\|3301_3754_+	ImmA/IrrE family metallo-endopeptidase	A0A059T7S0	Listeria_phage	1.7e-82	96.7
WP_012951517.1\|3805_4462_+	DUF4352 domain-containing protein	NA	NA	NA	NA
WP_025370561.1\|4607_5762_+\|integrase	site-specific integrase	A0A059T688	Listeria_phage	9.7e-215	98.2
6497:6510	attR	NA	NA	NA	NA

DBSCAN-SWA_2

118371 : 125794

Hokovirus(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_077941359.1\|118371_119928_-	glutamine-hydrolyzing GMP synthase	A0A1V0SH76	Hokovirus	3.5e-18	29.7
WP_046670537.1\|120056_120461_-	PTS sugar transporter subunit IIB	NA	NA	NA	NA
WP_046670536.1\|120521_120830_-	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA
WP_003727000.1\|120842_121667_-	ammonia-dependent NAD(+) synthetase	G3MA24	Bacillus_virus	9.7e-68	52.6
WP_003724632.1\|121678_123169_-	nicotinate phosphoribosyltransferase	G3MA18	Bacillus_virus	2.8e-113	49.5
WP_046670534.1\|123377_124391_-	glycosyltransferase	A0A1V0SAH6	Catovirus	4.6e-11	32.0
WP_046670532.1\|124405_125389_-	glycosyltransferase family 2 protein	A0A1V0SAH6	Catovirus	2.0e-11	33.8
WP_003730941.1\|125410_125794_-	glycerol-3-phosphate cytidylyltransferase	A0A1V0SGE7	Hokovirus	1.4e-16	40.7

Anti-CRISPR protein detection

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

9. NZ_JPTX01000014

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

162 : 25573

Listeria_phage(100.0%)

tail,capsid,holin,terminase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020830692.1\|162_564_+	hypothetical protein	A0A059T6C9	Listeria_phage	1.9e-53	76.7
WP_020830693.1\|560_839_+	hypothetical protein	NA	NA	NA	NA
WP_060587027.1\|838_1318_+	single-stranded DNA-binding protein	A0A059T5E0	Listeria_phage	5.4e-79	94.4
WP_060587028.1\|1336_1519_+	hypothetical protein	A8ASP6	Listeria_phage	2.6e-18	81.0
WP_060587030.1\|1463_1868_+	DUF1064 domain-containing protein	A8ASP7	Listeria_phage	1.4e-56	84.3
WP_020830696.1\|1871_2285_+	DUF2481 family protein	A8ASP8	Listeria_phage	1.6e-18	44.2
WP_003722548.1\|2303_2459_+	hypothetical protein	A0A0B5D186	Listeria_phage	3.3e-22	96.1
WP_060587031.1\|2546_3119_+	sigma-70 family RNA polymerase sigma factor	A0A0B5D145	Listeria_phage	1.3e-90	87.9
WP_003723793.1\|3389_3617_+	hypothetical protein	A0A0B5CTV3	Listeria_phage	6.8e-32	94.7
WP_060587033.1\|3656_4442_+	TerS	A0A0B5CTX0	Listeria_phage	5.5e-129	96.3
WP_060587034.1\|4371_5700_+\|terminase	PBSX family phage terminase large subunit	A0A0B5CYJ6	Listeria_phage	1.0e-231	87.0
WP_003723790.1\|5714_7271_+	hypothetical protein	A8ATU7	Listeria_phage	4.5e-300	98.8
WP_060587038.1\|7275_8319_+\|capsid	minor capsid protein	A0A0B5D111	Listeria_phage	1.0e-191	95.7
WP_003731717.1\|8414_8969_+	hypothetical protein	A8ATU9	Listeria_phage	2.6e-85	96.2
WP_003723787.1\|8991_9864_+	hypothetical protein	A0A0B5CTX8	Listeria_phage	2.3e-152	93.8
WP_003731718.1\|9877_10033_+	hypothetical protein	A0A0B5CYK6	Listeria_phage	2.2e-13	78.4
WP_003731719.1\|10033_10387_+	hypothetical protein	A8ATV2	Listeria_phage	9.3e-60	97.4
WP_003731720.1\|10386_10752_+	hypothetical protein	A8ATV3	Listeria_phage	1.6e-62	95.0
WP_003723784.1\|10741_11059_+	HK97 gp10 family phage protein	A8ATV4	Listeria_phage	1.7e-49	95.2
WP_003723783.1\|11055_11460_+	hypothetical protein	A8ATV5	Listeria_phage	2.1e-63	98.4
WP_003723782.1\|11431_11863_+	Ig domain-containing protein	A0A0B5CYK8	Listeria_phage	8.1e-58	82.9
WP_060587039.1\|11885_12125_+	Ig-like domain-containing protein	A8ASK3	Listeria_phage	2.3e-30	89.9
WP_060587041.1\|12175_12607_+	hypothetical protein	A8ATV7	Listeria_phage	4.6e-69	93.7
WP_060587042.1\|12639_12915_+	hypothetical protein	A0A0B5D116	Listeria_phage	2.6e-41	95.6
WP_060587044.1\|12919_17710_+\|tail	phage tail tape measure protein	A0A0B5CTS6	Listeria_phage	0.0e+00	88.4
WP_023552439.1\|17706_19275_+\|tail	phage tail family protein	A8ATW0	Listeria_phage	1.5e-303	99.2
WP_023553771.1\|19287_21453_+\|tail	phage tail protein	A8ATW1	Listeria_phage	0.0e+00	94.3
WP_003722523.1\|21491_21857_+	hypothetical protein	Q9T1A0	Listeria_phage	7.4e-12	100.0
WP_003722522.1\|21869_22151_+\|holin	holin	A8ASL4	Listeria_phage	3.4e-41	94.6
WP_003733663.1\|22150_22996_+	M15 family metallopeptidase	A0A059T7Y8	Listeria_phage	2.7e-137	94.7
WP_003722520.1\|23036_23810_-	DUF3825 domain-containing protein	A8ATW5	Listeria_phage	9.5e-150	100.0
WP_003733661.1\|24084_24582_-	AP2 domain-containing protein	A8ATW6	Listeria_phage	3.8e-91	100.0
WP_003722518.1\|24606_25056_-	anti-CRISPR protein AcrIIA1	A8ATW7	Listeria_phage	2.4e-76	100.0
WP_003731276.1\|25056_25308_-	hypothetical protein	A8ATW8	Listeria_phage	2.0e-40	100.0
WP_009924649.1\|25339_25573_-	hypothetical protein	A8ATW9	Listeria_phage	9.2e-08	48.1

Anti-CRISPR protein detection

Acr_ID: NZ_JPTX01000014.1|WP_003731276.1|25056_25308_-|hypothetical-protein

Click the colored protein region to show detailed information

Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NZ_JPTX01000014.1|WP_003731276.1|25056_25308_-|hypothetical-protein

25056_25308_-

83 aa aa

AcrIIA12

hit_Aca_id	identity	query_coverage	hit_coverage
anti_CRISPR3641\|WP_003731276.1\|AcrIIA12\|II-A\|Verified\|Listeria-monocytogenes	1.0	1	1.0

162-25573

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location	Mismatch
NZ_JPTX01000004_1	Unclear	1.2\|51126\|36\|NZ_JPTX01000004\|PILER-CR,CRISPRCasFinder,CRT	51126-51161	36	20275-20310	0

1. spacer 1.2|51126|36|NZ_JPTX01000004|PILER-CR,CRISPRCasFinder,CRT matches to NZ_JPTX01000014 position: 20275-20310, mismatch: 0

attacagtacaagcaagggttattgagttaaatatt	CRISPR spacer
attacagtacaagcaagggttattgagttaaatatt	Protospacer
************************************

10. NZ_JPTX01000001

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

576 : 33216

Listeria_phage(97.44%)

portal,tail,protease,capsid,terminase,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_025370570.1\|576_1167_+	pentapeptide repeat-containing protein	A0A060AFJ6	Listeria_phage	2.6e-38	73.5
WP_003731704.1\|1274_1604_+	hypothetical protein	A8ATE1	Listeria_phage	1.1e-57	100.0
WP_025370571.1\|1600_1876_+	hypothetical protein	A0A059T7Z9	Listeria_phage	2.9e-45	95.6
WP_025370572.1\|1979_2177_+	hypothetical protein	A8ASP4	Listeria_phage	2.6e-11	52.4
WP_025370574.1\|2982_3366_+	hypothetical protein	Q8W5W2	Listeria_phage	1.3e-62	95.3
WP_025370575.1\|3367_3847_+	siphovirus Gp157 family protein	Q8W5W1	Listeria_phage	1.3e-77	98.7
WP_025370576.1\|3859_4549_+	AAA family ATPase	A0A059T7T3	Listeria_phage	2.2e-129	99.6
WP_025370577.1\|4612_5869_+	DEAD/DEAH box helicase	Q8W5V9	Listeria_phage	3.6e-231	95.2
WP_025370578.1\|5893_6379_+	DUF669 domain-containing protein	A0A059T5G4	Listeria_phage	1.9e-87	99.4
WP_060586930.1\|6401_8741_+	DNA primase	A0A059T6A4	Listeria_phage	1.3e-144	42.1
WP_060586933.1\|9098_9416_+	VRR-NUC domain-containing protein	Q8W5V6	Listeria_phage	7.5e-53	98.1
WP_039389924.1\|9415_9685_+	hypothetical protein	W0GBM0	Listeria_phage	5.3e-15	73.6
WP_060586971.1\|9795_10326_+	DUF3310 domain-containing protein	A0A059T7T5	Listeria_phage	1.5e-74	76.6
WP_060586935.1\|10325_10553_+	hypothetical protein	NA	NA	NA	NA
WP_060586939.1\|10565_10991_+	DUF722 domain-containing protein	Q8W5V4	Listeria_phage	1.9e-67	90.8
WP_031672553.1\|11614_11941_+	hypothetical protein	A0A059T5G5	Listeria_phage	1.6e-53	97.2
WP_060586940.1\|11940_12255_+	HNH endonuclease	A8ATF8	Listeria_phage	2.5e-56	97.1
WP_012951543.1\|12303_12660_+\|terminase	P27 family phage terminase small subunit	A0A059T7Y1	Listeria_phage	2.0e-46	98.0
WP_060586941.1\|12656_14300_+\|terminase	terminase large subunit	A0A059T7Q8	Listeria_phage	0.0e+00	99.5
WP_060586943.1\|14311_15442_+\|portal	phage portal protein	A8AT96	Listeria_phage	1.2e-201	92.3
WP_060586945.1\|15438_16155_+\|protease	Clp protease ClpP	A0A1S5SFF8	Streptococcus_phage	9.3e-67	57.0
WP_060586949.1\|16181_17333_+\|capsid	phage major capsid protein	A8AT98	Listeria_phage	2.6e-212	98.4
WP_012581457.1\|17339_17510_+	hypothetical protein	A8AT99	Listeria_phage	1.2e-20	92.9
WP_003731645.1\|17519_17819_+	hypothetical protein	A8ATA0	Listeria_phage	5.3e-48	100.0
WP_003731644.1\|17802_18168_+	hypothetical protein	A8ATA1	Listeria_phage	1.3e-64	100.0
WP_003731643.1\|18164_18566_+	hypothetical protein	A8ATA2	Listeria_phage	2.1e-68	100.0
WP_012581456.1\|18562_18946_+	hypothetical protein	A8ATA3	Listeria_phage	3.8e-67	100.0
WP_014601419.1\|18967_19555_+\|tail	phage tail protein	A8ATA4	Listeria_phage	3.8e-106	97.9
WP_009917698.1\|19626_19959_+	hypothetical protein	A8ATA5	Listeria_phage	1.8e-52	99.1
WP_014589052.1\|19976_20159_+	hypothetical protein	A8ATA6	Listeria_phage	2.8e-20	100.0
WP_060586950.1\|20173_25093_+\|tail	phage tail tape measure protein	A0A059T5F4	Listeria_phage	0.0e+00	89.1
WP_025370593.1\|25085_26735_+\|tail	phage tail family protein	A0A059T682	Listeria_phage	0.0e+00	99.5
WP_060586952.1\|26747_29042_+\|tail	phage tail protein	A0A059T7Y6	Listeria_phage	0.0e+00	98.6
WP_025370595.1\|29031_30123_+	hypothetical protein	A0A059T7R4	Listeria_phage	1.1e-188	91.8
WP_003733957.1\|30173_30479_+	hypothetical protein	A0A059T5E6	Listeria_phage	1.8e-43	100.0
WP_003723294.1\|30478_30760_+\|holin	phage holin	A8ATW3	Listeria_phage	3.0e-45	100.0
WP_060586954.1\|30759_31467_+	M15 family metallopeptidase	A8ATW4	Listeria_phage	3.8e-129	97.4
WP_025370597.1\|31614_32316_+	DUF3800 domain-containing protein	R4IBV1	Listeria_phage	6.4e-129	97.8
WP_014930932.1\|32794_33028_+	hypothetical protein	A8ATX0	Listeria_phage	2.3e-35	94.8
WP_031672409.1\|33024_33216_+	hypothetical protein	A8ATC6	Listeria_phage	1.7e-28	98.4

DBSCAN-SWA_2

57378 : 114213

Bacillus_virus(15.0%)

protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003734523.1\|57378_58518_-\|protease	PrsW family intramembrane metalloprotease	NA	NA	NA	NA
WP_003723563.1\|58597_58993_-	helix-turn-helix transcriptional regulator	A9D9J6	Lactobacillus_prophage	1.3e-14	57.4
WP_003727524.1\|59143_59359_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003727523.1\|59482_60016_+\|protease	matrixin family metalloprotease	NA	NA	NA	NA
WP_003731300.1\|60031_60697_+	hypothetical protein	NA	NA	NA	NA
WP_003727521.1\|60958_61897_+	hypothetical protein	NA	NA	NA	NA
WP_003723884.1\|62011_63295_+	trigger factor	NA	NA	NA	NA
WP_003723886.1\|63479_64739_+\|protease	ATP-dependent protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.4e-145	63.2
WP_003726393.1\|64857_65424_+	type I signal peptidase SipX	NA	NA	NA	NA
WP_003726394.1\|65458_66028_+	type I signal peptidase SipY	NA	NA	NA	NA
WP_003727520.1\|66129_66672_+	type I signal peptidase SipZ	NA	NA	NA	NA
WP_003726396.1\|66681_67545_+	ribosome biogenesis GTPase YlqF	NA	NA	NA	NA
WP_003727519.1\|67541_68327_+	ribonuclease HII	G4YAY0	Emiliania_huxleyi_virus	6.7e-26	37.6
WP_046670597.1\|68460_69321_+	DNA-protecting protein DprA	S6BFL3	Thermus_phage	3.1e-40	47.2
WP_003727517.1\|69593_71672_+	type I DNA topoisomerase	A0A1V0SB35	Catovirus	5.4e-107	37.5
WP_003727516.1\|71734_73039_+\|tRNA	FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO	NA	NA	NA	NA
WP_003731303.1\|73321_74224_+	tyrosine recombinase XerC	A0A1B1IQT7	uncultured_Mediterranean_phage	1.6e-23	28.0
WP_003724001.1\|74244_74784_+\|protease	ATP-dependent protease subunit HslV	NA	NA	NA	NA
WP_003727514.1\|74797_76207_+\|protease	ATP-dependent protease ATPase subunit HslU	A0A1B2IBU3	Erwinia_phage	4.0e-29	26.0
WP_003726695.1\|76227_77007_+	GTP-sensing pleiotropic transcriptional regulator CodY	NA	NA	NA	NA
WP_003727513.1\|77110_77530_+	acyl-CoA thioesterase	NA	NA	NA	NA
WP_003724130.1\|77552_77864_+	hypothetical protein	NA	NA	NA	NA
WP_003726697.1\|77866_78739_+	aldose 1-epimerase family protein	NA	NA	NA	NA
WP_003726698.1\|78780_79377_-	glycerol-3-phosphate 1-O-acyltransferase PlsY	NA	NA	NA	NA
WP_003727511.1\|79534_79942_+	CoA-binding protein	NA	NA	NA	NA
WP_060586960.1\|80122_82090_+	DNA topoisomerase IV subunit B	G3M9Z3	Bacillus_virus	1.5e-122	42.5
WP_010958880.1\|82086_84546_+	DNA topoisomerase IV subunit A	G3M9Z5	Bacillus_virus	1.1e-101	31.8
WP_060586962.1\|84628_85096_+	S-ribosylhomocysteine lyase	NA	NA	NA	NA
WP_046670607.1\|85723_87526_+	class 1 internalin InlK	NA	NA	NA	NA
WP_003727507.1\|87558_89445_-	peptidoglycan O-acetyltransferase OatA	B5WZU0	Pseudomonas_phage	3.8e-43	32.2
WP_003726657.1\|89657_90356_+	glycerophosphodiester phosphodiesterase	A0A0S2MYI4	Enterococcus_phage	6.4e-12	31.9
WP_003723738.1\|90588_92265_+	glycerol-3-phosphate dehydrogenase/oxidase	NA	NA	NA	NA
WP_046670610.1\|92391_93309_+\|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	NA	NA	NA	NA
WP_003719566.1\|93430_93664_+	RNA chaperone Hfq	NA	NA	NA	NA
WP_012681271.1\|93774_94998_+	GTPase HflX	NA	NA	NA	NA
WP_003727505.1\|94990_96217_+	methionine gamma-lyase family protein	NA	NA	NA	NA
WP_003719570.1\|96418_96787_+	MerR family transcriptional regulator	NA	NA	NA	NA
WP_003723435.1\|96857_98192_+	type I glutamate--ammonia ligase	M1NM71	Moumouvirus	4.2e-12	23.8
WP_046670614.1\|98335_99631_+	arsenic transporter	A0A2H4PQU3	Staphylococcus_phage	1.7e-146	62.3
WP_003726565.1\|99664_100189_-	GNAT family N-acetyltransferase	G9BWD5	Planktothrix_phage	1.0e-06	31.1
WP_003723438.1\|100219_100834_-	transcriptional repressor LexA	A0A1B2APZ1	Phage_Wrath	9.3e-15	62.1
WP_003727502.1\|100989_101319_+	cell division suppressor protein YneA	NA	NA	NA	NA
WP_003727501.1\|101413_101641_+	DUF896 domain-containing protein	NA	NA	NA	NA
WP_003734516.1\|101787_103782_+	transketolase	NA	NA	NA	NA
WP_003726667.1\|104002_104242_+	YneF family protein	NA	NA	NA	NA
WP_003726668.1\|104290_105022_-	class I SAM-dependent methyltransferase	A0A1X9I6N4	Streptococcus_phage	2.3e-81	58.0
WP_003726669.1\|105043_105550_-	ParB-like nuclease domain-containing protein	A0A220GKT8	Streptococcus_phage	1.4e-56	66.7
WP_046670617.1\|105559_106864_-	DUF3440 domain-containing protein	A0A220GKF8	Streptococcus_phage	6.1e-133	51.9
WP_012681273.1\|106853_108059_-	helicase SNF2	L0P6E9	Lactobacillus_phage	7.0e-91	46.6
WP_046670619.1\|108036_108411_-	hypothetical protein	NA	NA	NA	NA
WP_003723449.1\|108703_109432_+	UMP kinase	NA	NA	NA	NA
WP_003723450.1\|109431_109989_+	ribosome recycling factor	NA	NA	NA	NA
WP_003727497.1\|110219_110978_+	isoprenyl transferase	R9W0U9	Flavobacterium_phage	4.4e-22	42.1
WP_003727496.1\|110991_111780_+	phosphatidate cytidylyltransferase	NA	NA	NA	NA
WP_003726414.1\|111794_112937_+	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA
WP_003726415.1\|112950_114213_+\|protease	RIP metalloprotease RseP	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