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_CP046744	Vibrio cholerae strain 3569-08 chromosome 1, complete sequence	0 crisprs	csx1,cas3,DinG,WYL,DEDDh,csa3,RT	0	0	5	0
NZ_CP046743	Vibrio cholerae strain 3569-08 chromosome 2, complete sequence	0 crisprs	cas3,csa3,PD-DExK	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

807255 : 844070

Vibrio_phage(62.5%)

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_001161489.1\|807255_807423_+	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_000170632.1\|807415_807583_+	hypothetical protein	NA	NA	NA	NA
WP_001265358.1\|808621_809188_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001881266.1\|809349_810918_+	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
WP_001881265.1\|810922_811207_+	hypothetical protein	NA	NA	NA	NA
WP_001052672.1\|811336_812029_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001161489.1\|812106_812274_+	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_000170634.1\|812266_812851_+	DNA-binding protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
WP_000593519.1\|813084_813459_-	cholera enterotoxin binding subunit CtxB	A0A142I6Y1	Vibrio_phage	5.9e-65	100.0
WP_001888508.1\|813455_814232_-	cholera enterotoxin catalytic subunit CtxA	A0A023W6A1	Vibrio_virus	7.8e-152	100.0
WP_050926705.1\|814331_815531_-	zonula occludens toxin ZOT	A0A023W604	Vibrio_virus	5.3e-240	100.0
WP_000979342.1\|815527_815821_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_080480141.1\|815817_817101_-	hypothetical protein	A0A142I701	Vibrio_phage	2.7e-218	98.4
WP_000493022.1\|817111_817360_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001888513.1\|817495_817876_-	hypothetical protein	A0A0N9HJ67	Vibrio_phage	4.0e-69	100.0
WP_019830347.1\|817853_818933_-	hypothetical protein	A0A023W5Z8	Vibrio_virus	2.2e-213	100.0
WP_000492997.1\|819064_819400_+	helix-turn-helix transcriptional regulator	A0A0N9HJE7	Vibrio_phage	4.7e-53	100.0
WP_000593519.1\|820007_820382_-	cholera enterotoxin binding subunit CtxB	A0A142I6Y1	Vibrio_phage	5.9e-65	100.0
WP_001888508.1\|820378_821155_-	cholera enterotoxin catalytic subunit CtxA	A0A023W6A1	Vibrio_virus	7.8e-152	100.0
WP_050926705.1\|821254_822454_-	zonula occludens toxin ZOT	A0A023W604	Vibrio_virus	5.3e-240	100.0
WP_000979342.1\|822450_822744_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_080480141.1\|822740_824024_-	hypothetical protein	A0A142I701	Vibrio_phage	2.7e-218	98.4
WP_000493022.1\|824034_824283_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001888513.1\|824418_824799_-	hypothetical protein	A0A0N9HJ67	Vibrio_phage	4.0e-69	100.0
WP_019830347.1\|824776_825856_-	hypothetical protein	A0A023W5Z8	Vibrio_virus	2.2e-213	100.0
WP_000492997.1\|825987_826323_+	helix-turn-helix transcriptional regulator	A0A0N9HJE7	Vibrio_phage	4.7e-53	100.0
WP_080314558.1\|827042_840719_-	MARTX multifunctional-autoprocessing repeats-in-toxin holotoxin RtxA	B3Y8K3	Vibrio_virus	8.4e-07	100.0
WP_001881196.1\|840703_841165_-	RTX toxin-activating lysine-acyltransferase RtxC	NA	NA	NA	NA
WP_000514481.1\|841190_841550_-	hypothetical protein	NA	NA	NA	NA
WP_149591715.1\|841964_844070_+	RTX toxin T1SS ABC transporter subunit RtxB	W8CYL7	Bacillus_phage	4.9e-39	27.1

DBSCAN-SWA_2

1582174 : 1589367

Anguillid_herpesvirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001162850.1\|1582174_1582603_-	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4
WP_000107237.1\|1582806_1584096_-	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
WP_000872176.1\|1584315_1584510_-	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_001124187.1\|1584558_1584897_-	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_001196560.1\|1584910_1586761_-	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
WP_001105747.1\|1586784_1587300_-	co-chaperone HscB	NA	NA	NA	NA
WP_000301571.1\|1587348_1587672_-	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_000331703.1\|1587732_1588116_-	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_000775253.1\|1588152_1589367_-	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5

DBSCAN-SWA_3

1820987 : 1828250

uncultured_Mediterranean_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001279365.1\|1820987_1821875_+	cysteine synthase CysM	A0A1X9I5K7	Streptococcus_phage	4.1e-56	41.1
WP_001895515.1\|1822142_1824731_+	DNA mismatch repair protein MutS	A0A1V0SJ67	Klosneuvirus	2.2e-33	25.7
WP_000116737.1\|1824823_1825831_-	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_000177568.1\|1825904_1826840_-	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.8e-05	34.7
WP_000002982.1\|1826839_1827466_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_001883363.1\|1827458_1828250_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.4e-69	51.6

DBSCAN-SWA_4

2515172 : 2548811

Vibrio_phage(92.86%)

transposase,tail,plate

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001065600.1\|2515172_2515709_-	hypothetical protein	H9C146	Vibrio_phage	6.8e-30	58.1
WP_001895339.1\|2515708_2516560_-	hypothetical protein	Q8HA52	Vibrio_phage	1.9e-42	60.4
WP_000510163.1\|2516559_2517147_-	DUF2313 domain-containing protein	A0A2I7S9L6	Vibrio_phage	2.1e-93	79.5
WP_001147110.1\|2517131_2518199_-\|plate	baseplate J/gp47 family protein	A0A2I7S9E5	Vibrio_phage	1.6e-147	72.1
WP_000095018.1\|2518188_2518638_-	hypothetical protein	M4MB61	Vibrio_phage	1.1e-54	73.6
WP_001003653.1\|2518640_2519255_-\|plate	phage baseplate assembly protein V	M4MCP6	Vibrio_phage	4.0e-74	70.2
WP_001286435.1\|2519251_2520331_-	hypothetical protein	M4M9L5	Vibrio_phage	3.0e-157	75.4
WP_000863380.1\|2520323_2521643_-	DMT family permease	A0A2I7S9E8	Vibrio_phage	5.0e-167	68.0
WP_001284562.1\|2521654_2523358_-	tape measure protein	A0A2I7S9D9	Vibrio_phage	3.4e-147	52.9
WP_000996598.1\|2523483_2523843_-	hypothetical protein	A0A2I7S9E0	Vibrio_phage	5.0e-37	64.1
WP_001895328.1\|2523842_2524196_-\|tail	tail tube protein	A0A2I7S9D5	Vibrio_phage	7.9e-43	69.2
WP_001128141.1\|2524210_2525695_-\|tail	tail sheath protein	M1Q565	Vibrio_phage	1.5e-207	72.3
WP_000437435.1\|2525697_2525898_-	DUF2635 domain-containing protein	NA	NA	NA	NA
WP_000100991.1\|2525911_2526511_-	hypothetical protein	M4MHF0	Vibrio_phage	6.4e-69	61.2
WP_000513061.1\|2526507_2527050_-	phage morphogeneis protein	A0A2I7S9D7	Vibrio_phage	3.3e-72	74.9
WP_001029276.1\|2527049_2527484_-	DUF1320 domain-containing protein	A0A2I7S9E9	Vibrio_phage	9.6e-67	88.2
WP_000004756.1\|2527489_2528065_-	hypothetical protein	M4M9M3	Vibrio_phage	4.0e-20	54.5
WP_001218331.1\|2528153_2529053_-	hypothetical protein	M4MB71	Vibrio_phage	2.6e-146	81.4
WP_001262460.1\|2529055_2530012_-	hypothetical protein	M1Q578	Vibrio_phage	4.7e-98	59.8
WP_001249579.1\|2530344_2530629_-	hypothetical protein	NA	NA	NA	NA
WP_000638762.1\|2530628_2531264_-	hypothetical protein	A0A1V0E8A2	Vibrio_phage	1.7e-40	47.3
WP_000638754.1\|2531260_2531773_-	hypothetical protein	A0A0F6N5P8	Escherichia_phage	5.3e-32	45.6
WP_000246042.1\|2531769_2532018_-	hypothetical protein	NA	NA	NA	NA
WP_001895334.1\|2532029_2532803_-	hypothetical protein	M1PVV7	Vibrio_phage	1.3e-114	75.5
WP_000027033.1\|2532795_2534355_-	DUF935 domain-containing protein	M4M9P3	Vibrio_phage	3.5e-228	76.1
WP_001105344.1\|2534351_2535917_-	hypothetical protein	M4MHG0	Vibrio_phage	4.5e-231	78.0
WP_001195537.1\|2535917_2536484_-	DUF3486 family protein	M4MCR3	Vibrio_phage	3.2e-46	55.0
WP_000008606.1\|2536495_2536786_-	hypothetical protein	A0A2I7S9D8	Vibrio_phage	3.9e-40	82.3
WP_000362983.1\|2536794_2537094_-	DUF2730 family protein	M1Q558	Vibrio_phage	1.1e-29	70.0
WP_001281317.1\|2537093_2537324_-	conjugal transfer protein TraR	M4MHG5	Vibrio_phage	8.8e-19	63.2
WP_001120998.1\|2537320_2537920_-	hypothetical protein	M1NVP4	Vibrio_phage	5.8e-46	57.3
WP_000493682.1\|2538182_2538740_-	hypothetical protein	A0A2I7S9B9	Vibrio_phage	1.8e-70	72.1
WP_001029055.1\|2538824_2539241_-	hypothetical protein	M4MHG9	Vibrio_phage	6.3e-31	50.0
WP_000837433.1\|2539319_2539766_-	hypothetical protein	NA	NA	NA	NA
WP_000040562.1\|2539755_2540301_-	regulatory protein GemA	A0A2I7S9B8	Vibrio_phage	4.5e-53	58.2
WP_000404914.1\|2540313_2540592_-	hypothetical protein	NA	NA	NA	NA
WP_000466681.1\|2540594_2540828_-	hypothetical protein	M4M9N5	Vibrio_phage	4.1e-24	66.2
WP_000762331.1\|2540907_2541438_-	hypothetical protein	A0A0M3LPP6	Mannheimia_phage	2.2e-28	42.9
WP_000856884.1\|2541434_2541704_-	DUF3850 domain-containing protein	C1KFE1	Lactobacillus_virus	2.5e-12	47.6
WP_001895326.1\|2541706_2541901_-	hypothetical protein	NA	NA	NA	NA
WP_000413231.1\|2542053_2542251_-	hypothetical protein	NA	NA	NA	NA
WP_000551393.1\|2542234_2542477_-	hypothetical protein	M4MCS5	Vibrio_phage	4.2e-19	62.0
WP_000512064.1\|2542469_2542742_-	hypothetical protein	A0A2I7S9G2	Vibrio_phage	2.9e-21	61.2
WP_001192102.1\|2542751_2543366_-	DUF3164 family protein	M4MHH7	Vibrio_phage	2.0e-86	79.6
WP_001032752.1\|2543515_2543890_-	hypothetical protein	M4MB90	Vibrio_phage	2.9e-27	59.0
WP_001216028.1\|2543899_2544469_-	hypothetical protein	NA	NA	NA	NA
WP_000157299.1\|2544478_2544703_-	hypothetical protein	NA	NA	NA	NA
WP_000800334.1\|2544710_2545655_-	AAA family ATPase	M4M9P4	Vibrio_phage	1.1e-126	73.7
WP_001895336.1\|2545681_2547685_-\|transposase	transposase	A0A2I7S9A8	Vibrio_phage	2.2e-275	69.8
WP_000373567.1\|2547696_2547921_-	transcriptional regulator	M1PVU4	Vibrio_phage	2.3e-16	61.9
WP_000005494.1\|2548073_2548811_+	transcriptional regulator	A0A2I7S9A5	Vibrio_phage	1.4e-81	61.3

DBSCAN-SWA_5

2924850 : 2931466

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000210573.1\|2924850_2925984_+	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.4e-64	40.4
WP_001890340.1\|2925992_2927246_+	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000543544.1\|2927345_2927795_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_001131994.1\|2927820_2928924_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
WP_000493874.1\|2928928_2929582_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001122865.1\|2929622_2930732_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000864130.1\|2930995_2931466_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7

Anti-CRISPR protein detection

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