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
CP016490	Halomonas sp. GFAJ-1 chromosome, complete genome	0 crisprs	DinG,cas3,cas14j,csa3,csx1,cmr1gr7,cas10,cmr3gr5,cmr4gr7,cmr5gr11,cmr6gr7,csx16,cas6,cas2,cas1,c2c10_CAS-V-U3,DEDDh,cas5f,cas7f,cas6f,RT	0	0	4	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

61643 : 72585

Tupanvirus(16.67%)

tRNA

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
AVI61247.1\|61643_64253_-\|tRNA	alanine--tRNA ligase	A0A2K9L3D8	Tupanvirus	4.4e-74	37.5
AVI61248.1\|64392_64872_-	recombinase RecX	NA	NA	NA	NA
AVI61249.1\|64913_65978_-	recombinase RecA	A0A2D1GPX2	Mycobacterium_phage	1.3e-112	61.6
AVI61250.1\|66067_66601_-	damage-inducible protein CinA	B5TK85	Pseudomonas_phage	6.3e-36	60.1
AVI61251.1\|66815_69395_+	DNA mismatch repair protein MutS	A0A1V0SJ67	Klosneuvirus	1.1e-29	23.7
AVI61252.1\|69551_69875_+	ferredoxin	NA	NA	NA	NA
AVI61253.1\|70361_71651_-	phosphopyruvate hydratase	W6LP63	Streptococcus_phage	2.0e-131	58.8
AVI61254.1\|71721_72585_-	3-deoxy-8-phosphooctulonate synthase	E3T537	Cafeteria_roenbergensis_virus	2.6e-47	42.6

DBSCAN-SWA_2

332044 : 385737

Shigella_phage(17.65%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVI61472.1\|332044_332323_+\|transposase	transposase	U5P4I9	Shigella_phage	6.9e-18	62.5
AVI61473.1\|332379_333198_+\|transposase	transposase	U5P429	Shigella_phage	2.8e-99	64.7
AVI61474.1\|333768_334044_+	hypothetical protein	NA	NA	NA	NA
AVI61475.1\|335578_336094_+	hypothetical protein	NA	NA	NA	NA
AVI61476.1\|336115_336574_+	Opioid growth factor receptor (OGFr) conserved domain containing protein	NA	NA	NA	NA
AVI61477.1\|336959_337265_+	monooxygenase	NA	NA	NA	NA
AVI61478.1\|337408_337639_-	hypothetical protein	NA	NA	NA	NA
AVI61479.1\|338177_339575_+	hypothetical protein	A0A1B0V854	Salmonella_phage	2.0e-36	51.8
AVI61480.1\|339614_339851_+	hypothetical protein	NA	NA	NA	NA
AVI61481.1\|339850_342943_+	diguanylate cyclase	NA	NA	NA	NA
AVI61482.1\|343264_344329_+	diguanylate cyclase	A0A127AWB9	Bacillus_phage	2.7e-14	29.7
AVI61483.1\|344475_346173_+	chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	5.9e-11	40.5
AVI61484.1\|346406_348071_+	hypothetical protein	A0A2H4J162	uncultured_Caudovirales_phage	1.7e-10	25.2
AVI61485.1\|348370_350584_+	hypothetical protein	NA	NA	NA	NA
AVI61486.1\|350883_351252_-\|transposase	transposase	A0A0N9SHJ4	Paenibacillus_phage	2.8e-22	44.7
AVI61487.1\|351338_351557_+	hypothetical protein	NA	NA	NA	NA
AVI61488.1\|351635_352388_+	hypothetical protein	NA	NA	NA	NA
AVI61489.1\|352527_354525_-	chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	4.2e-08	47.6
AVI61490.1\|354661_355963_-	hypothetical protein	NA	NA	NA	NA
AVI61491.1\|356010_356598_-	hypothetical protein	NA	NA	NA	NA
AVI61492.1\|356856_357567_-	hypothetical protein	NA	NA	NA	NA
AVI61493.1\|357958_359686_+	histidine kinase	A0A1V0SL97	Klosneuvirus	4.5e-14	25.8
AVI61494.1\|359682_361593_-	hypothetical protein	A0A1V0SGX0	Hokovirus	4.3e-50	35.2
AVI61495.1\|361576_362848_-	hypothetical protein	NA	NA	NA	NA
AVI61496.1\|362874_364941_-	hypothetical protein	Q8QKV7	Ectocarpus_siliculosus_virus	2.0e-29	27.4
AVI61497.1\|364942_366790_-	hypothetical protein	Q8QKV7	Ectocarpus_siliculosus_virus	1.1e-47	33.6
AVI61498.1\|366779_367310_-	oxidoreductase	NA	NA	NA	NA
AVI61499.1\|367657_370225_-	hypothetical protein	A0A1V0SGX0	Hokovirus	4.3e-53	29.3
AVI61500.1\|370271_371393_-	histidine kinase	NA	NA	NA	NA
AVI61501.1\|371456_373520_-	diguanylate cyclase	W8CYM9	Bacillus_phage	7.5e-08	31.7
AVI61502.1\|373661_374015_+	hypothetical protein	NA	NA	NA	NA
AVI61503.1\|374071_374779_+	DNA-binding response regulator	NA	NA	NA	NA
AVI61504.1\|374933_375302_+\|transposase	transposase	A0A0N9SHJ4	Paenibacillus_phage	2.8e-22	44.7
AVI61505.1\|375933_376257_-	hypothetical protein	NA	NA	NA	NA
AVI61506.1\|376599_376911_-	hypothetical protein	NA	NA	NA	NA
AVI61507.1\|377012_380210_-	DNA breaking-rejoining enzyme, catalytic core	NA	NA	NA	NA
AVI61508.1\|380202_381582_-	hypothetical protein	NA	NA	NA	NA
AVI61509.1\|381624_382692_-	hypothetical protein	NA	NA	NA	NA
AVI61510.1\|383287_383656_-\|transposase	transposase	A0A0N9SHJ4	Paenibacillus_phage	2.8e-22	44.7
AVI61511.1\|383690_384044_-	hypothetical protein	NA	NA	NA	NA
AVI61512.1\|384356_384926_-	hypothetical protein	NA	NA	NA	NA
AVI61513.1\|384918_385737_-\|transposase	transposase	U5P429	Shigella_phage	2.8e-99	64.7

DBSCAN-SWA_3

1090284 : 1098044

Klosneuvirus(33.33%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVI62113.1\|1090284_1092735_+	restriction endonuclease	A0A2I5ARD8	Synechococcus_phage	9.8e-07	26.7
AVI62114.1\|1092808_1094290_+	DNA methyltransferase	A0A1V0SLK8	Klosneuvirus	1.1e-37	30.2
AVI62115.1\|1094286_1095975_+	hypothetical protein	A0A1V0SLK8	Klosneuvirus	9.1e-12	26.1
AVI62116.1\|1095971_1096826_+	abortive phage resistance protein	A3QSC6	Clostridium_virus	4.6e-28	32.8
AVI62117.1\|1096827_1097727_-\|transposase	transposase	A0A0N7C035	Escherichia_phage	3.0e-94	58.3
AVI62118.1\|1097726_1098044_-\|transposase	transposase	B6ETC4	Enterobacteria_phage	7.9e-26	58.7

DBSCAN-SWA_4

2014810 : 2183649

107

Escherichia_phage(16.0%)

capsid,integrase,transposase

attL 2019692:2019706|attR 2078291:2078305

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVI62871.1\|2014810_2015983_+\|transposase	transposase	A0A077SLN2	Escherichia_phage	6.8e-123	58.5
AVI62872.1\|2016150_2016744_-	hypothetical protein	NA	NA	NA	NA
AVI62873.1\|2016873_2017968_-	sulfate ABC transporter ATP-binding protein	Q6GZ03	Mycoplasma_phage	3.9e-24	45.2
AVI62874.1\|2017964_2018792_-	sulfate ABC transporter permease subunit CysW	NA	NA	NA	NA
AVI62875.1\|2018791_2019646_-	sulfate ABC transporter permease subunit CysT	NA	NA	NA	NA
AVI62876.1\|2019655_2020693_-	thiosulfate transporter subunit	NA	NA	NA	NA
2019692:2019706	attL	NA	NA	NA	NA
AVI62877.1\|2020898_2021600_+	ribulose-phosphate 3-epimerase	NA	NA	NA	NA
AVI62878.1\|2021623_2022922_-	NADH dehydrogenase	NA	NA	NA	NA
AVI62879.1\|2023062_2023731_+	phosphoglycolate phosphatase, bacterial	NA	NA	NA	NA
AVI62880.1\|2023783_2024698_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
AVI62881.1\|2025069_2025975_-	LysR family transcriptional regulator	NA	NA	NA	NA
AVI62882.1\|2026134_2027574_+	aldehyde dehydrogenase	NA	NA	NA	NA
AVI64314.1\|2027596_2028577_+	peptidase M19	NA	NA	NA	NA
AVI62883.1\|2028690_2030268_+	BCCT transporter	A0A2I7QNT1	Vibrio_phage	1.3e-07	22.3
AVI62884.1\|2030260_2032063_+	hypothetical protein	NA	NA	NA	NA
AVI62885.1\|2032059_2032827_+	hypothetical protein	NA	NA	NA	NA
AVI62886.1\|2032848_2033232_+	reactive intermediate/imine deaminase	NA	NA	NA	NA
AVI64315.1\|2033426_2035028_+	NADH-quinone oxidoreductase subunit F	NA	NA	NA	NA
AVI62887.1\|2035024_2037823_+	formate dehydrogenase subunit alpha	NA	NA	NA	NA
AVI62888.1\|2037857_2040956_-	acriflavin resistance protein	NA	NA	NA	NA
AVI62889.1\|2040939_2042037_-	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA
AVI62890.1\|2042298_2043273_+	malate dehydrogenase	NA	NA	NA	NA
AVI62891.1\|2043393_2044050_-	phosphoserine phosphatase	NA	NA	NA	NA
AVI62892.1\|2044223_2044718_+	RNA pyrophosphohydrolase	NA	NA	NA	NA
AVI62893.1\|2044802_2047064_+	phosphoenolpyruvate--protein phosphotransferase	A0A1V0SGR7	Hokovirus	7.6e-14	29.4
AVI62894.1\|2047046_2047820_-	hypothetical protein	NA	NA	NA	NA
AVI62895.1\|2047966_2049142_+	response regulator receiver protein	B5LWA6	Feldmannia_species_virus	5.2e-06	29.2
AVI62896.1\|2049138_2049936_+	hypothetical protein	NA	NA	NA	NA
AVI62897.1\|2049991_2050795_+	prolipoprotein diacylglyceryl transferase	NA	NA	NA	NA
AVI62898.1\|2050918_2051749_+	thymidylate synthase	A0A2R4A1R4	Microbacterium_phage	1.2e-105	66.7
AVI62899.1\|2051745_2052285_+	diacylglycerol kinase	A0A1I9S5V6	Bacillus_phage	6.9e-30	41.6
AVI62900.1\|2052305_2053118_+	hypothetical protein	NA	NA	NA	NA
AVI62901.1\|2053383_2054433_+	porin	Q1MVN1	Enterobacteria_phage	7.9e-06	26.7
AVI62902.1\|2055490_2056810_+	UDP-glucose 6-dehydrogenase	A0A127AXI2	Bacillus_phage	8.5e-82	38.7
AVI62903.1\|2056960_2057698_+	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA
AVI62904.1\|2057739_2058975_+	hypothetical protein	NA	NA	NA	NA
AVI62905.1\|2058971_2059433_+	oligosaccharide biosynthesis protein Alg14	NA	NA	NA	NA
AVI62906.1\|2059429_2059936_+	glycosyl transferase family 28	NA	NA	NA	NA
AVI62907.1\|2059932_2061021_+	GlcNAc transferase	NA	NA	NA	NA
AVI62908.1\|2061057_2062443_+	undecaprenyl-phosphate glucose phosphotransferase	NA	NA	NA	NA
AVI62909.1\|2062564_2063839_+	ligase	NA	NA	NA	NA
AVI62910.1\|2063835_2065080_-	hypothetical protein	NA	NA	NA	NA
AVI62911.1\|2065082_2065760_-	hypothetical protein	NA	NA	NA	NA
AVI62912.1\|2066469_2066727_+\|transposase	transposase	S5VXZ8	Leptospira_phage	9.9e-11	34.5
AVI62913.1\|2066772_2068365_+\|transposase	transposase	S5VTD3	Leptospira_phage	8.7e-89	39.9
AVI62914.1\|2068483_2069182_+	hypothetical protein	NA	NA	NA	NA
AVI62915.1\|2069243_2069432_+	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	NA	NA	NA
AVI62916.1\|2069483_2071070_-	hypothetical protein	NA	NA	NA	NA
AVI62917.1\|2071455_2072439_-\|integrase	integrase	NA	NA	NA	NA
AVI62918.1\|2072452_2074000_-	helicase	NA	NA	NA	NA
AVI62919.1\|2073996_2074605_-	hypothetical protein	NA	NA	NA	NA
AVI62920.1\|2075182_2077513_-	hypothetical protein	NA	NA	NA	NA
AVI62921.1\|2077500_2079855_-	hypothetical protein	NA	NA	NA	NA
2078291:2078305	attR	NA	NA	NA	NA
AVI62922.1\|2079857_2080622_-	hypothetical protein	NA	NA	NA	NA
AVI62923.1\|2081523_2081934_+	hypothetical protein	NA	NA	NA	NA
AVI62924.1\|2081933_2083670_+\|capsid	capsid assembly protein	NA	NA	NA	NA
AVI62925.1\|2083748_2084558_+	ABC transporter permease	NA	NA	NA	NA
AVI62926.1\|2084561_2085659_+	chain-length determining protein	NA	NA	NA	NA
AVI62927.1\|2085737_2086556_-\|transposase	transposase	U5P429	Shigella_phage	2.8e-99	64.7
AVI62928.1\|2086612_2086891_-\|transposase	transposase	U5P4I9	Shigella_phage	6.9e-18	62.5
AVI62929.1\|2087931_2088234_-\|transposase	transposase	NA	NA	NA	NA
AVI62930.1\|2088294_2088588_+	four helix bundle protein	NA	NA	NA	NA
AVI62931.1\|2088659_2090072_+	MBL fold hydrolase	NA	NA	NA	NA
AVI62932.1\|2090201_2091014_+	polysaccharide/polyol phosphate ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	1.6e-09	27.6
AVI62933.1\|2091025_2094376_+	hypothetical protein	NA	NA	NA	NA
AVI62934.1\|2094384_2095998_+	aldolase	E5EQ69	Micromonas_sp._RCC1109_virus	5.8e-16	24.2
AVI62935.1\|2096020_2096761_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA
AVI62936.1\|2096757_2097411_+	HAD family hydrolase	NA	NA	NA	NA
AVI64316.1\|2097569_2098139_+	hypothetical protein	NA	NA	NA	NA
AVI62937.1\|2098135_2098879_+	hypothetical protein	NA	NA	NA	NA
AVI64317.1\|2098884_2099727_+	3-deoxy-8-phosphooctulonate synthase	E3T537	Cafeteria_roenbergensis_virus	1.8e-48	42.5
AVI64318.1\|2100535_2101024_+	3-deoxy-D-manno-octulosonate 8-phosphate phosphatase	NA	NA	NA	NA
AVI64319.1\|2101164_2102010_+	arabinose-5-phosphate isomerase	A0A2P0VNK5	Tetraselmis_virus	4.2e-42	40.6
AVI62938.1\|2102370_2102745_+	hypothetical protein	NA	NA	NA	NA
AVI62939.1\|2102716_2104318_+	phosphoglucomutase, alpha-D-glucose phosphate-specific	NA	NA	NA	NA
AVI62940.1\|2104484_2105657_+\|transposase	transposase	A0A077SLN2	Escherichia_phage	8.8e-123	58.5
AVI62941.1\|2106448_2107303_+	UTP--glucose-1-phosphate uridylyltransferase	A0A127AW70	Bacillus_phage	2.3e-48	42.6
AVI62942.1\|2107388_2108147_+	3'(2'),5'-bisphosphate nucleotidase	NA	NA	NA	NA
AVI62943.1\|2108845_2109847_-	AraC family transcriptional regulator	NA	NA	NA	NA
AVI62944.1\|2110386_2111772_+	channel protein TolC	NA	NA	NA	NA
AVI62945.1\|2111839_2112679_+	hypothetical protein	NA	NA	NA	NA
AVI62946.1\|2112763_2113561_+	multidrug transporter	NA	NA	NA	NA
AVI62947.1\|2113704_2144742_+	hypothetical protein	NA	NA	NA	NA
AVI62948.1\|2144738_2146544_+	hypothetical protein	NA	NA	NA	NA
AVI62949.1\|2146547_2148698_+	peptidase M50	NA	NA	NA	NA
AVI62950.1\|2148713_2150672_+	preprotein translocase subunit SecA	NA	NA	NA	NA
AVI62951.1\|2150700_2151438_+	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA
AVI62952.1\|2151795_2152596_-\|transposase	transposase	S5WIU1	Leptospira_phage	2.0e-46	38.2
AVI62953.1\|2152616_2152850_-\|transposase	transposase	NA	NA	NA	NA
AVI64320.1\|2153256_2153931_-	hypothetical protein	NA	NA	NA	NA
AVI62954.1\|2154094_2155267_+\|transposase	transposase	A0A077SLN2	Escherichia_phage	2.3e-123	58.7
AVI64321.1\|2155362_2156694_-	HNH endonuclease	Q331Y3	Clostridium_botulinum_C_phage	7.6e-38	34.6
AVI62955.1\|2157368_2158721_+	glutamate dehydrogenase	NA	NA	NA	NA
AVI62956.1\|2158828_2159242_+	nucleoside diphosphate kinase regulator	NA	NA	NA	NA
AVI62957.1\|2159253_2159796_-	antitermination protein NusG	NA	NA	NA	NA
AVI62958.1\|2159801_2161136_-	8-amino-7-oxononanoate synthase	V5LQ39	Emiliania_huxleyi_virus	1.2e-46	31.9
AVI62959.1\|2161132_2168494_-	polyketide synthase	NA	NA	NA	NA
AVI62960.1\|2168490_2170146_-	capsular biosynthesis protein	NA	NA	NA	NA
AVI64322.1\|2170147_2170903_-	short-chain dehydrogenase	NA	NA	NA	NA
AVI62961.1\|2170974_2172210_-	capsule biosynthesis protein CapA	NA	NA	NA	NA
AVI62962.1\|2172211_2174221_-	capsule biosynthesis protein	NA	NA	NA	NA
AVI62963.1\|2174525_2176544_+	diguanylate cyclase	NA	NA	NA	NA
AVI62964.1\|2176612_2177560_+	malate transporter	NA	NA	NA	NA
AVI62965.1\|2177737_2179300_-	hypothetical protein	NA	NA	NA	NA
AVI62966.1\|2181250_2182219_-	hypothetical protein	NA	NA	NA	NA
AVI62967.1\|2182432_2183332_-\|transposase	transposase	A0A0N7C035	Escherichia_phage	3.0e-94	58.3
AVI62968.1\|2183331_2183649_-\|transposase	transposase	B6ETC4	Enterobacteria_phage	7.9e-26	58.7

Anti-CRISPR protein detection

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