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
CP018868	Lactobacillus alimentarius DSM 20249 plasmid pLDW-11, complete sequence	0 crisprs	NA	0	0	1	0
CP018867	Lactobacillus alimentarius DSM 20249 chromosome, complete genome	0 crisprs	DEDDh,csa3,DinG,cas14j,cas3,RT	0	0	5	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

10753 : 65124

Staphylococcus_phage(35.71%)

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
AUI72859.1\|10753_12025_-\|transposase	ISL3 family transposase	A0A1S5SBP9	Streptococcus_phage	9.2e-41	31.4
AUI72860.1\|12307_13483_+\|transposase	IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	2.6e-26	28.8
AUI72861.1\|15476_15785_+\|transposase	transposase	NA	NA	NA	NA
AUI72862.1\|15748_16264_+\|transposase	IS5 family transposase	NA	NA	NA	NA
AUI72863.1\|16250_16610_-	hypothetical protein	NA	NA	NA	NA
AUI72864.1\|16788_18039_+	hypothetical protein	A0A1S5SBP9	Streptococcus_phage	7.9e-45	32.5
AUI72865.1\|18188_19247_-	hypothetical protein	NA	NA	NA	NA
AUI72866.1\|19343_19673_-	hypothetical protein	NA	NA	NA	NA
AUI72867.1\|19933_20689_-\|transposase	transposase	Q6J1X2	Lactobacillus_phage	4.3e-139	98.8
AUI72868.1\|20742_20994_-\|transposase	transposase	Q6J1X3	Lactobacillus_phage	6.0e-37	95.2
AUI72869.1\|21203_21446_-	hypothetical protein	NA	NA	NA	NA
AUI72870.1\|23049_24390_+	amino acid permease	NA	NA	NA	NA
AUI72871.1\|24706_27421_-	hypothetical protein	NA	NA	NA	NA
AUI72872.1\|27848_31016_+	restriction endonuclease	A0A220A398	Liberibacter_phage	1.5e-20	22.9
AUI72873.1\|31029_32652_+	type I restriction-modification system subunit M	A0A2H4PQP4	Staphylococcus_phage	4.3e-128	50.5
AUI72874.1\|32641_33874_+	type I restriction endonuclease subunit S	A0A2H4PQP5	Staphylococcus_phage	6.6e-12	32.7
AUI72875.1\|34305_35430_-	hypothetical protein	NA	NA	NA	NA
AUI72876.1\|35433_35649_-	hypothetical protein	NA	NA	NA	NA
AUI72877.1\|35770_37906_-	DNA topoisomerase III	A0A1X9I6W8	Streptococcus_phage	2.0e-109	47.0
AUI72878.1\|37912_38323_-	hypothetical protein	NA	NA	NA	NA
AUI72879.1\|38337_39177_-	conjugal transfer protein	NA	NA	NA	NA
AUI72880.1\|39195_39585_-	hypothetical protein	NA	NA	NA	NA
AUI72881.1\|39596_41150_-	conjugal transfer protein	NA	NA	NA	NA
AUI72882.1\|41165_41555_-	hypothetical protein	NA	NA	NA	NA
AUI72883.1\|41551_42037_-	conjugal transfer protein	NA	NA	NA	NA
AUI72884.1\|42037_42406_-	thioredoxin	NA	NA	NA	NA
AUI72885.1\|42392_43010_-	hypothetical protein	NA	NA	NA	NA
AUI72886.1\|43023_44178_-	peptidoglycan hydrolase	A0A1X9I9Q1	Staphylococcus_phage	1.3e-14	38.1
AUI72887.1\|44178_45597_-	conjugal transfer protein	NA	NA	NA	NA
AUI72888.1\|45589_47605_-	conjugal transfer protein	NA	NA	NA	NA
AUI72889.1\|47616_48276_-	conjugal transfer protein	NA	NA	NA	NA
AUI72890.1\|48244_48607_-	conjugal transfer protein	NA	NA	NA	NA
AUI72891.1\|48627_48963_-	conjugal transfer protein	NA	NA	NA	NA
AUI72892.1\|48964_49579_-	hypothetical protein	NA	NA	NA	NA
AUI72893.1\|49617_49926_-	hypothetical protein	NA	NA	NA	NA
AUI72894.1\|50009_52070_-	nickase	NA	NA	NA	NA
AUI72895.1\|52321_52549_+	hypothetical protein	NA	NA	NA	NA
AUI72896.1\|52571_52850_+	hypothetical protein	NA	NA	NA	NA
AUI72897.1\|52839_53520_-	ATPase	NA	NA	NA	NA
AUI72898.1\|53516_53702_-	hypothetical protein	NA	NA	NA	NA
AUI72899.1\|53748_54030_-	damage-inducible protein J	NA	NA	NA	NA
AUI72900.1\|54256_55336_-	plasmid replication initiation protein	NA	NA	NA	NA
AUI72901.1\|55942_56191_-	hypothetical protein	NA	NA	NA	NA
AUI72902.1\|56204_57011_-	peptide transporter	A0A1V0DZZ0	Clostridioides_phage	2.3e-21	30.1
AUI72903.1\|57107_57701_-	Pin-related site-specific recombinase/DNA invertase	M4QQC6	Vibrio_phage	4.6e-19	42.4
AUI72904.1\|58122_59328_+	FAD-dependent oxidoreductase	NA	NA	NA	NA
AUI72905.1\|59612_60884_-\|transposase	ISL3 family transposase	A0A1S5SBP9	Streptococcus_phage	9.2e-41	31.4
AUI72906.1\|61166_62342_+\|transposase	IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	2.6e-26	28.8
AUI72907.1\|64336_64645_+\|transposase	transposase	NA	NA	NA	NA
AUI72908.1\|64608_65124_+\|transposase	IS5 family transposase	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

2. CP018867

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

409268 : 414541

Staphylococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AUI71062.1\|409268_409997_+	hypothetical protein	A0A2P9FI75	Pseudomonas_phage	5.0e-07	28.3
AUI72750.1\|410352_411372_+	riboflavin biosynthesis protein RibD	A0A2H4PQS8	Staphylococcus_phage	2.8e-40	34.6
AUI71063.1\|411372_411972_+	riboflavin synthase subunit alpha	A0A2I2L4R9	Orpheovirus	7.9e-19	36.8
AUI71064.1\|411961_413164_+	bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	8.3e-92	47.2
AUI71065.1\|413165_413636_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.2e-27	44.3
AUI72751.1\|413704_414541_-	aldo/keto reductase	A0A1V0SDE7	Indivirus	3.8e-11	25.0

DBSCAN-SWA_2

804705 : 814706

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AUI71384.1\|804705_806250_-	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	Q58MG4	Prochlorococcus_phage	2.1e-71	47.1
AUI71385.1\|806227_806827_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	4.3e-25	35.9
AUI71386.1\|806823_807843_-	phosphoribosylformylglycinamidine cyclo-ligase	A0A0E3FC27	Synechococcus_phage	2.0e-62	41.6
AUI71387.1\|807855_809262_-	amidophosphoribosyltransferase	A0A1B1ISH6	uncultured_Mediterranean_phage	5.4e-50	30.7
AUI71388.1\|809237_811457_-	phosphoribosylformylglycinamidine synthase II	A6N228	Microbacterium_phage	7.2e-142	40.5
AUI71389.1\|811456_812131_-	phosphoribosylformylglycinamidine synthase I	NA	NA	NA	NA
AUI71390.1\|812131_812377_-	phosphoribosylformylglycinamidine synthase	NA	NA	NA	NA
AUI71391.1\|812386_813094_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	NA	NA	NA
AUI71392.1\|813097_814228_-	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA
AUI71393.1\|814220_814706_-	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	2.1e-22	47.3

DBSCAN-SWA_3

1236517 : 1299331

Macacine_betaherpesvirus(23.08%)

transposase,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AUI71745.1\|1236517_1237507_+\|tRNA	tRNA-dihydrouridine synthase	NA	NA	NA	NA
AUI71746.1\|1237708_1238164_-	SprT family protein	NA	NA	NA	NA
AUI71747.1\|1238165_1238600_-	hypothetical protein	NA	NA	NA	NA
AUI71748.1\|1238605_1239586_-	glycosyltransferase	B9UDL7	Salmonella_phage	5.4e-49	38.0
AUI71749.1\|1239586_1241038_-	hypothetical protein	NA	NA	NA	NA
AUI72804.1\|1241056_1242208_-	aromatic amino acid aminotransferase	NA	NA	NA	NA
AUI71750.1\|1242388_1243204_-	NAD(+) synthase	G3MA24	Bacillus_virus	3.3e-68	52.9
AUI71751.1\|1243206_1244679_-	nicotinate phosphoribosyltransferase	G3MA18	Bacillus_virus	1.5e-103	42.6
AUI71752.1\|1244718_1245795_-	glycosyl transferase	NA	NA	NA	NA
AUI71753.1\|1245853_1246579_+	glycosyltransferase	NA	NA	NA	NA
AUI71754.1\|1246626_1248021_-	hypothetical protein	NA	NA	NA	NA
AUI71755.1\|1248097_1248799_-	GntR family transcriptional regulator	NA	NA	NA	NA
AUI71756.1\|1249304_1250780_-	peptide ABC transporter permease	A0A0P0IY73	Acinetobacter_phage	3.4e-71	33.0
AUI71757.1\|1250932_1252429_-	glycerol kinase	NA	NA	NA	NA
AUI71758.1\|1252467_1253976_-	glycerol kinase	NA	NA	NA	NA
AUI71759.1\|1257280_1258621_-	FAD-dependent oxidoreductase	NA	NA	NA	NA
AUI71760.1\|1260142_1261360_-	NADPH-dependent FMN reductase	A0A2P0ZL82	Lactobacillus_phage	1.6e-63	65.9
AUI71761.1\|1261371_1261980_-	NADPH-dependent FMN reductase	A0A2P0ZL77	Lactobacillus_phage	7.7e-54	53.8
AUI71762.1\|1262080_1263010_-	thiamine biosynthesis protein ApbE	NA	NA	NA	NA
AUI71763.1\|1263110_1264931_+	FAD-binding dehydrogenase	NA	NA	NA	NA
AUI71764.1\|1265224_1265815_+	hypothetical protein	NA	NA	NA	NA
AUI71765.1\|1265850_1266330_+	hypothetical protein	NA	NA	NA	NA
AUI71766.1\|1266351_1267155_+	hypothetical protein	NA	NA	NA	NA
AUI71767.1\|1267596_1268886_-\|tRNA	serine--tRNA ligase	A0A1B1IVT2	uncultured_Mediterranean_phage	2.0e-96	44.8
AUI71768.1\|1269169_1270618_-	gamma-aminobutyrate permease	NA	NA	NA	NA
AUI71769.1\|1272020_1272638_-\|transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	1.7e-32	39.6
AUI71770.1\|1272916_1273246_-\|transposase	transposase	NA	NA	NA	NA
AUI71771.1\|1273242_1273449_-	hypothetical protein	NA	NA	NA	NA
AUI71772.1\|1274364_1274898_+\|transposase	transposase	NA	NA	NA	NA
AUI71773.1\|1275176_1275794_+\|transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	1.7e-32	39.6
AUI71774.1\|1275879_1276284_-	hypothetical protein	NA	NA	NA	NA
AUI71775.1\|1276264_1276969_-	hypothetical protein	NA	NA	NA	NA
AUI71776.1\|1276971_1277961_-	hypothetical protein	NA	NA	NA	NA
AUI71777.1\|1278057_1279155_-	hypothetical protein	NA	NA	NA	NA
AUI71778.1\|1279270_1280101_-	hypothetical protein	NA	NA	NA	NA
AUI71779.1\|1280225_1280705_-	hypothetical protein	NA	NA	NA	NA
AUI71780.1\|1280818_1281331_-	hypothetical protein	NA	NA	NA	NA
AUI71781.1\|1281434_1281929_+	lipid hydroperoxide peroxidase	NA	NA	NA	NA
AUI71782.1\|1282351_1283113_-	NADPH-dependent FMN reductase	NA	NA	NA	NA
AUI71783.1\|1283293_1283935_+	epimerase	NA	NA	NA	NA
AUI71784.1\|1284164_1285508_+	guanine permease	A0A0R6PHV4	Moraxella_phage	3.4e-46	34.0
AUI71785.1\|1285757_1288814_+	hypothetical protein	NA	NA	NA	NA
AUI71786.1\|1289154_1291065_-	cadmium-translocating P-type ATPase	E4ZFI9	Streptococcus_phage	2.7e-105	36.0
AUI71787.1\|1291187_1291547_+	transcriptional regulator	NA	NA	NA	NA
AUI71788.1\|1291635_1293048_-	hypothetical protein	NA	NA	NA	NA
AUI71789.1\|1293281_1293857_+	hypothetical protein	NA	NA	NA	NA
AUI71790.1\|1294287_1295412_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	1.8e-24	29.3
AUI71791.1\|1295598_1295871_+	hypothetical protein	NA	NA	NA	NA
AUI71792.1\|1296071_1296251_+	hypothetical protein	NA	NA	NA	NA
AUI71793.1\|1296617_1297190_-	hypothetical protein	NA	NA	NA	NA
AUI71794.1\|1297901_1298435_+\|transposase	transposase	NA	NA	NA	NA
AUI71795.1\|1298713_1299331_+\|transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	1.7e-32	39.6

DBSCAN-SWA_4

1782613 : 1790689

Enterococcus_phage(42.86%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AUI72212.1\|1782613_1783231_-\|transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	1.7e-32	39.6
AUI72213.1\|1783509_1784043_-\|transposase	transposase	NA	NA	NA	NA
AUI72214.1\|1784120_1785146_-	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A096XT60	Enterococcus_phage	9.4e-121	66.5
AUI72215.1\|1785161_1787327_-	ribonucleotide-diphosphate reductase subunit alpha	A8E2R1	Enterococcus_phage	1.2e-250	59.7
AUI72216.1\|1787313_1787688_-	ribonucleotide reductase assembly protein NrdI	A0A142F1R4	Bacillus_phage	1.2e-12	35.8
AUI72217.1\|1787693_1787924_-	NrdH-redoxin	A0A249XUR7	Enterococcus_phage	4.7e-12	47.3
AUI72218.1\|1788201_1788828_+	hypothetical protein	NA	NA	NA	NA
AUI72219.1\|1788886_1789093_-	DUF2187 domain-containing protein	NA	NA	NA	NA
AUI72220.1\|1789178_1789736_+	guanylate kinase	A0A1W6JK60	Lactococcus_phage	2.2e-15	28.6
AUI72221.1\|1789948_1790689_+	glycoside hydrolase	A0A0A8WIF2	Clostridium_phage	1.3e-15	41.3

DBSCAN-SWA_5

2007149 : 2018083

Bacillus_virus(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AUI72404.1\|2007149_2008667_+	acyl-CoA synthetase	Q75ZG1	Hepacivirus	4.6e-31	29.9
AUI72405.1\|2008663_2009641_+	sulfonate ABC transporter substrate-binding protein	NA	NA	NA	NA
AUI72406.1\|2009767_2010181_-	hypothetical protein	NA	NA	NA	NA
AUI72407.1\|2010177_2010432_-	hypothetical protein	NA	NA	NA	NA
AUI72408.1\|2010504_2011011_+	hypothetical protein	X2CXD8	Lactobacillus_phage	2.9e-06	36.1
AUI72409.1\|2011243_2011972_-	sulfonate ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	6.4e-31	39.4
AUI72410.1\|2011971_2012781_-	ABC transporter permease	G3M9Y4	Bacillus_virus	1.3e-19	26.7
AUI72411.1\|2012784_2014287_-	acyl-CoA synthetase	A0A1V0SBX8	Catovirus	4.9e-17	23.9
AUI72412.1\|2014483_2015101_-\|transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	1.7e-32	39.6
AUI72413.1\|2015379_2015913_-\|transposase	transposase	NA	NA	NA	NA
AUI72414.1\|2016005_2017394_-	two-component sensor histidine kinase	W8CYF6	Bacillus_phage	1.1e-26	29.8
AUI72415.1\|2017390_2018083_-	DNA-binding response regulator	W8CYM9	Bacillus_phage	2.9e-33	34.2

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. CP018868

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. CP018867

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