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_LT960789	Lactobacillus sakei strain MFPB16A1401 plasmid 2, complete sequence	0 crisprs	NA	0	0	1	0
NZ_LT960788	Lactobacillus sakei strain MFPB16A1401 chromosome 1	0 crisprs	csa3,cas3,DinG,DEDDh,RT	0	0	6	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

13764 : 23080

Enterococcus_phage(33.33%)

transposase

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_029508458.1\|13764_15912_+	class 1b ribonucleoside-diphosphate reductase subunit alpha	A8E2R1	Enterococcus_phage	9.4e-256	60.3
WP_025016513.1\|16018_16945_+	ribonucleotide-diphosphate reductase subunit beta	A0A2H4P8A9	Corynebacterium_phage	1.7e-36	31.7
WP_099960441.1\|16959_17910_+	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A096XT60	Enterococcus_phage	5.5e-99	55.0
WP_025016529.1\|18248_19424_+\|transposase	IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	8.2e-28	29.2
WP_025016530.1\|19535_19985_+	DUF305 domain-containing protein	A0A1V0SJW0	Klosneuvirus	2.0e-06	33.1
WP_025016531.1\|20042_20603_-	hypothetical protein	NA	NA	NA	NA
WP_003587210.1\|21063_21531_-	DNA starvation/stationary phase protection protein	NA	NA	NA	NA
WP_011373852.1\|22159_23080_+\|transposase	IS30-like element ISLsa1 family transposase	Q9MBM9	Staphylococcus_prophage	9.2e-51	38.2

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_LT960788

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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

622003 : 664775

Lactobacillus_phage(36.84%)

bacteriocin,protease,integrase

attL 644301:644318|attR 657699:657716

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_025015927.1\|622003_622351_-\|bacteriocin	bacteriocin immunity protein	NA	NA	NA	NA
WP_094365682.1\|622605_622860_+	hypothetical protein	NA	NA	NA	NA
WP_157697942.1\|623270_624440_+	GHKL domain-containing protein	NA	NA	NA	NA
WP_011374269.1\|624441_625188_+	response regulator transcription factor	NA	NA	NA	NA
WP_025015924.1\|625592_625928_+	hypothetical protein	NA	NA	NA	NA
WP_016264785.1\|626026_626209_+	hypothetical protein	NA	NA	NA	NA
WP_094365892.1\|626350_626683_+\|bacteriocin	bacteriocin immunity protein	NA	NA	NA	NA
WP_082267673.1\|626701_626989_+\|bacteriocin	bacteriocin immunity protein	NA	NA	NA	NA
WP_025015921.1\|627012_627192_+	hypothetical protein	NA	NA	NA	NA
WP_025015920.1\|627220_627457_+	hypothetical protein	NA	NA	NA	NA
WP_011374279.1\|627529_627853_-	hypothetical protein	NA	NA	NA	NA
WP_011374280.1\|627936_628221_+	hypothetical protein	NA	NA	NA	NA
WP_011374281.1\|628390_629431_+	bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB	NA	NA	NA	NA
WP_099960197.1\|629575_629890_+	hypothetical protein	NA	NA	NA	NA
WP_099960198.1\|629914_630208_+\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA
WP_099960199.1\|630194_630632_-	hypothetical protein	NA	NA	NA	NA
WP_011374284.1\|630788_632141_+	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_056936388.1\|632299_632542_+	hypothetical protein	NA	NA	NA	NA
WP_099960200.1\|632663_632804_+	DUF3781 domain-containing protein	NA	NA	NA	NA
WP_099960201.1\|632816_633053_+	hypothetical protein	NA	NA	NA	NA
WP_025015914.1\|633092_633818_-	DUF554 domain-containing protein	NA	NA	NA	NA
WP_099960202.1\|634922_636398_+	UbiD family decarboxylase	NA	NA	NA	NA
WP_099960203.1\|636419_637010_+	UbiX family flavin prenyltransferase	NA	NA	NA	NA
WP_099960204.1\|636987_637413_+	hypothetical protein	NA	NA	NA	NA
WP_099960205.1\|637448_639230_-	glycerophosphoryl diester phosphodiesterase membrane domain-containing protein	I6XE30	Staphylococcus_phage	1.2e-09	26.2
WP_099960206.1\|639320_640727_-	C69 family dipeptidase	NA	NA	NA	NA
WP_061827194.1\|640886_641561_+	hypothetical protein	NA	NA	NA	NA
WP_099960207.1\|641736_642894_-\|integrase	site-specific integrase	J7KBT5	Streptococcus_phage	5.6e-61	39.4
WP_061827192.1\|642954_643977_-	virulence RhuM family protein	Q9JMN3	Wolbachia_phage	3.3e-81	50.0
WP_076835057.1\|644033_644840_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
644301:644318	attL	NA	NA	NA	NA
WP_076790340.1\|644995_645184_+	helix-turn-helix domain-containing protein	E9LUT5	Lactobacillus_phage	7.0e-06	48.0
WP_004271094.1\|645186_645459_+	hypothetical protein	NA	NA	NA	NA
WP_076647183.1\|645798_646065_+	hypothetical protein	NA	NA	NA	NA
WP_076790334.1\|646229_647021_+	bifunctional DNA primase/polymerase	A0A1X9I739	Streptococcus_phage	1.7e-40	37.8
WP_099960210.1\|647011_648508_+	DNA primase	A0A1P8VVM0	Streptococcus_phage	1.9e-69	35.1
WP_076647194.1\|648787_649180_+	hypothetical protein	A0A2H4JHE6	uncultured_Caudovirales_phage	1.5e-13	42.7
WP_099960211.1\|649323_649629_+	hypothetical protein	NA	NA	NA	NA
WP_099960426.1\|649654_649774_+	DUF2292 domain-containing protein	NA	NA	NA	NA
WP_061827182.1\|649875_650298_+	transcriptional regulator	NA	NA	NA	NA
WP_061827181.1\|650365_650707_+	hypothetical protein	NA	NA	NA	NA
WP_080563426.1\|651031_651142_+	SH3 domain-containing protein	NA	NA	NA	NA
WP_076647206.1\|651222_652917_-	hypothetical protein	NA	NA	NA	NA
WP_061827174.1\|653069_653294_+	transcriptional regulator	A0A1S5SDR1	Streptococcus_phage	6.8e-08	37.1
WP_099960212.1\|654379_655492_-\|integrase	site-specific integrase	B4XYR4	Lactobacillus_phage	9.7e-63	37.3
WP_099960213.1\|655686_656652_-	hypothetical protein	E3W8I2	Leuconostoc_phage	1.2e-27	63.5
WP_099960214.1\|656753_657209_-	toxin	A0A2H4JE34	uncultured_Caudovirales_phage	6.9e-15	34.7
WP_099960215.1\|657227_657569_-	helix-turn-helix transcriptional regulator	A0A2H4JAR9	uncultured_Caudovirales_phage	3.1e-20	49.0
WP_099960216.1\|657727_657955_+	helix-turn-helix domain-containing protein	A0A2H4PQQ0	Staphylococcus_phage	2.8e-09	47.7
657699:657716	attR	NA	NA	NA	NA
WP_099960217.1\|657968_658280_+	DUF771 domain-containing protein	NA	NA	NA	NA
WP_157771196.1\|658276_658435_+	hypothetical protein	NA	NA	NA	NA
WP_099960218.1\|658513_658714_+	hypothetical protein	NA	NA	NA	NA
WP_099960219.1\|658797_659283_+	siphovirus Gp157 family protein	Q8W5W1	Listeria_phage	1.6e-14	34.0
WP_099960220.1\|659287_660028_+	AAA family ATPase	Q6J1V8	Lactobacillus_phage	6.7e-68	58.7
WP_099960221.1\|659960_661316_+	DEAD/DEAH box helicase	Q9T0Y3	Lactobacillus_phage	4.7e-152	59.7
WP_099960222.1\|661318_661870_+	DUF669 domain-containing protein	Q9T0Y2	Lactobacillus_phage	2.4e-54	59.4
WP_099960223.1\|661888_664183_+	DNA primase	Q9T0Y1	Lactobacillus_phage	4.1e-281	60.4
WP_099960224.1\|664460_664775_+	VRR-NUC domain-containing protein	A0A1B0YA93	Lactobacillus_phage	2.9e-28	59.2

DBSCAN-SWA_2

668004 : 688682

Lactobacillus_phage(50.0%)

capsid,terminase,tail,portal,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_099960231.1\|668004_668373_+	hypothetical protein	B4XYT8	Lactobacillus_phage	8.3e-11	37.3
WP_099960427.1\|668378_668687_+	hypothetical protein	A0A2K9V545	Lactobacillus_phage	6.1e-23	59.0
WP_099960232.1\|668686_669007_+	hypothetical protein	NA	NA	NA	NA
WP_099960233.1\|669161_669575_+	transcriptional regulator	A0A2I7SC40	Paenibacillus_phage	5.3e-06	27.6
WP_157771197.1\|669859_670006_+	hypothetical protein	NA	NA	NA	NA
WP_099960234.1\|670038_670533_+\|terminase	terminase small subunit	O03926	Lactobacillus_phage	4.8e-46	61.0
WP_099960235.1\|670510_671830_+\|terminase	PBSX family phage terminase large subunit	U3PBE8	Lactobacillus_phage	9.5e-150	57.5
WP_157771198.1\|671889_673362_+\|portal	phage portal protein	Q938L2	Temperate_phage	7.9e-121	48.2
WP_172952843.1\|673358_674486_+\|capsid	capsid protein	U3PFU0	Lactobacillus_phage	1.0e-67	39.3
WP_157771199.1\|674577_675195_+	phage scaffolding protein	O03931	Lactobacillus_phage	5.1e-13	38.3
WP_099960239.1\|675199_676024_+\|capsid	N4-gp56 family major capsid protein	Q9AZ61	Lactococcus_phage	4.2e-95	69.8
WP_172952844.1\|676118_676496_+	hypothetical protein	C5IUJ7	Streptococcus_phage	6.5e-11	35.2
WP_099960241.1\|676488_676833_+	hypothetical protein	O03932	Lactobacillus_phage	6.1e-08	33.3
WP_099960428.1\|676841_677168_+\|capsid	capsid protein	Q5YA66	Bacillus_phage	1.3e-23	48.6
WP_099960242.1\|677167_677560_+\|capsid	capsid protein	Q5YA65	Bacillus_phage	3.5e-31	46.2
WP_035145511.1\|677570_678023_+	hypothetical protein	A0A1S5SEC5	Streptococcus_phage	2.0e-30	51.7
WP_099960243.1\|678162_678627_+	hypothetical protein	NA	NA	NA	NA
WP_099960244.1\|678637_679246_+	hypothetical protein	Q938K4	Temperate_phage	1.1e-23	35.9
WP_099960245.1\|679238_682259_+	tape measure protein	L0P6G7	Lactobacillus_phage	2.6e-78	61.5
WP_099960246.1\|682242_682968_+\|tail	phage tail family protein	A0A1B2APY0	Phage_Wrath	3.5e-53	43.2
WP_099960247.1\|682967_684500_+	hypothetical protein	A0A1B2APX2	Phage_Wrath	7.3e-85	40.2
WP_099960248.1\|684499_685996_+	metallophosphoesterase	O03968	Lactobacillus_phage	1.1e-48	35.2
WP_099960249.1\|685995_686799_+	hypothetical protein	NA	NA	NA	NA
WP_099960250.1\|686798_687104_+	DUF2977 domain-containing protein	Q7M292	Lactobacillus_phage	5.6e-13	42.2
WP_099960252.1\|687313_687589_+	hypothetical protein	NA	NA	NA	NA
WP_099960253.1\|687585_687795_+\|holin	holin	A0A2H4IZQ3	uncultured_Caudovirales_phage	2.3e-05	45.9
WP_099960254.1\|687791_688682_+	N-acetylmuramoyl-L-alanine amidase	Q9MCC8	Lactobacillus_phage	1.2e-44	47.5

DBSCAN-SWA_3

745258 : 753552

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_085391676.1\|745258_746554_+	adenylosuccinate lyase	A0A2H4UUU6	Bodo_saltans_virus	8.0e-16	29.6
WP_085391677.1\|746666_747392_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3FUQ7	Synechococcus_phage	9.2e-38	39.9
WP_085391678.1\|747384_747645_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_085391679.1\|747641_748328_+	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_099960266.1\|748317_750543_+	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.2e-149	41.0
WP_085391681.1\|750518_751952_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	3.8e-51	33.9
WP_099960267.1\|751957_752986_+	phosphoribosylformylglycinamidine cyclo-ligase	Q58MH8	Prochlorococcus_phage	5.6e-65	44.6
WP_099960268.1\|752982_753552_+	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	5.4e-25	35.4

DBSCAN-SWA_4

1098105 : 1105168

Bacillus_virus(16.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_016265160.1\|1098105_1098606_-	dihydrofolate reductase	G3MBI7	Bacillus_virus	3.5e-28	38.7
WP_016265161.1\|1098616_1099567_-	thymidylate synthase	A0A0N9SH48	Staphylococcus_phage	1.6e-122	64.3
WP_035145823.1\|1099713_1101603_-	ABC-F family ATP-binding cassette domain-containing protein	A0A2K9L3Z8	Tupanvirus	2.3e-48	29.1
WP_011374705.1\|1101715_1102177_-	hypothetical protein	NA	NA	NA	NA
WP_025015765.1\|1102245_1103439_-\|tRNA	CCA tRNA nucleotidyltransferase	H7BUW3	unidentified_phage	1.9e-43	50.5
WP_025015764.1\|1103586_1104459_+	YitT family protein	M1Q1P6	Streptococcus_phage	4.8e-57	41.5
WP_025015763.1\|1104559_1105168_-	lytic polysaccharide monooxygenase	A0A0K1Y848	Apis_mellifera_filamentous_virus	1.0e-13	30.0

DBSCAN-SWA_5

1256714 : 1267352

Enterococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_056948015.1\|1256714_1257410_-	LysM peptidoglycan-binding domain-containing protein	A0A096XT26	Enterococcus_phage	5.0e-17	40.3
WP_016265281.1\|1258127_1258379_-	hypothetical protein	NA	NA	NA	NA
WP_016265282.1\|1258605_1258980_-	hypothetical protein	E3W8I0	Leuconostoc_phage	4.1e-05	41.9
WP_025016522.1\|1258972_1260277_-	Y-family DNA polymerase	Q6DMX4	Streptococcus_phage	6.2e-85	39.7
WP_051524308.1\|1260276_1260522_-	hypothetical protein	A0A0S2MYI8	Enterococcus_phage	7.0e-06	39.7
WP_035144976.1\|1260541_1260916_-	hypothetical protein	NA	NA	NA	NA
WP_096695396.1\|1260942_1261629_-	LysM peptidoglycan-binding domain-containing protein	A0A096XT26	Enterococcus_phage	2.2e-17	40.9
WP_016265285.1\|1261871_1263914_-	KUP/HAK/KT family potassium transporter	M1IAJ4	Acanthocystis_turfacea_Chlorella_virus	3.0e-70	35.7
WP_011374865.1\|1264071_1264245_+	hypothetical protein	NA	NA	NA	NA
WP_011374866.1\|1264377_1264857_+	nucleoside 2-deoxyribosyltransferase	A0A2P0ZL88	Lactobacillus_phage	1.5e-15	35.4
WP_016265286.1\|1264908_1266282_-	glycoside hydrolase family 1 protein	A0A0B5JD41	Pandoravirus	3.9e-45	30.4
WP_016265287.1\|1266632_1267352_-	aquaporin family protein	M1HQB9	Paramecium_bursaria_Chlorella_virus	2.4e-22	30.2

DBSCAN-SWA_6

1352423 : 1360569

Bacillus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_016265355.1\|1352423_1354169_-	ATP-binding cassette domain-containing protein	W8CYL7	Bacillus_phage	1.5e-46	27.7
WP_011374970.1\|1354310_1354541_-	YneF family protein	NA	NA	NA	NA
WP_025016405.1\|1354621_1354864_-	DUF896 domain-containing protein	NA	NA	NA	NA
WP_011374972.1\|1354998_1355613_+	transcriptional repressor LexA	A0A1B2APZ1	Phage_Wrath	1.1e-15	58.2
WP_011374973.1\|1355783_1356302_-	adenine phosphoribosyltransferase	A0A1V0SKE5	Klosneuvirus	3.4e-26	41.3
WP_025016402.1\|1356325_1358638_-	single-stranded-DNA-specific exonuclease RecJ	A7KV88	Bacillus_phage	3.8e-77	30.9
WP_035146095.1\|1358782_1359775_+	UDP-glucose 4-epimerase GalE	A0A2K9L1R4	Tupanvirus	2.9e-50	37.0
WP_011374976.1\|1359860_1360226_+	DUF1304 domain-containing protein	NA	NA	NA	NA
WP_011374977.1\|1360242_1360569_+	heavy metal-binding domain-containing protein	M4STD1	Rhodobacter_phage	5.4e-06	34.6

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_LT960789

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_LT960788

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection