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
CP030051	Bradyrhizobium guangdongense strain CCBAU 51649 chromosome, complete genome	0 crisprs	csa3,cas3,DEDDh,WYL	0	0	3	0
CP030052	Bradyrhizobium guangdongense strain CCBAU 51649 plasmid unnamed, complete sequence	0 crisprs	DEDDh,RT	0	0	3	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

1019351 : 1086847

Pandoravirus(12.5%)

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
QAU37106.1\|1019351_1020323_-\|transposase	IS110 family transposase	NA	NA	NA	NA
QAU37107.1\|1020634_1021366_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA
QAU37108.1\|1021447_1021951_-	DNA-binding protein	NA	NA	NA	NA
QAU37109.1\|1022019_1022802_-	alpha/beta hydrolase	NA	NA	NA	NA
QAU37110.1\|1022806_1024102_-	O-acetylhomoserine aminocarboxypropyltransferase	A0A0B5JD48	Pandoravirus	2.9e-10	25.3
QAU37111.1\|1024198_1025020_-	IclR family transcriptional regulator	NA	NA	NA	NA
QAU37112.1\|1025122_1026088_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA
QAU37113.1\|1026091_1026709_+	flavin reductase family protein	NA	NA	NA	NA
QAU37114.1\|1026754_1027615_+	2-hydroxyhepta-2,4-diene-1,7-dioate isomerase	NA	NA	NA	NA
QAU42521.1\|1027691_1028420_+	2-oxo-hepta-3-ene-1,7-dioic acid hydratase	NA	NA	NA	NA
QAU37115.1\|1028445_1028841_+	RidA family protein	NA	NA	NA	NA
QAU37116.1\|1028854_1029730_+	2-pyrone-4,6-dicarboxylate hydrolase	NA	NA	NA	NA
QAU37117.1\|1029719_1029923_+	hypothetical protein	NA	NA	NA	NA
QAU37118.1\|1029847_1030855_-	LLM class flavin-dependent oxidoreductase	NA	NA	NA	NA
QAU37119.1\|1030992_1031481_+	cyclic nucleotide-binding protein	NA	NA	NA	NA
QAU37120.1\|1033530_1033719_+	hypothetical protein	NA	NA	NA	NA
QAU37121.1\|1033687_1035451_+	thioredoxin reductase	NA	NA	NA	NA
QAU37122.1\|1035571_1035880_+	EthD family reductase	NA	NA	NA	NA
QAU42522.1\|1036016_1036604_+	hypothetical protein	NA	NA	NA	NA
QAU37123.1\|1036751_1037576_+	alpha/beta hydrolase	A0A2R4AQZ9	Mycobacterium_phage	1.7e-11	25.8
QAU37124.1\|1037585_1038227_-	TetR family transcriptional regulator	NA	NA	NA	NA
QAU37125.1\|1038309_1039248_+	short chain dehydrogenase	NA	NA	NA	NA
QAU42523.1\|1039187_1039934_+	epimerase	NA	NA	NA	NA
QAU37126.1\|1040014_1040473_+	DUF2948 domain-containing protein	NA	NA	NA	NA
QAU37127.1\|1040631_1041927_+	histidinol dehydrogenase	NA	NA	NA	NA
QAU37128.1\|1041923_1042421_+	UPF0262 family protein	NA	NA	NA	NA
QAU37129.1\|1042427_1042895_+	low molecular weight phosphatase family protein	NA	NA	NA	NA
QAU37130.1\|1043051_1043681_+	septum formation inhibitor Maf	NA	NA	NA	NA
QAU37131.1\|1043807_1043990_+	DNA gyrase inhibitor YacG	NA	NA	NA	NA
QAU37132.1\|1044302_1044596_-	hypothetical protein	NA	NA	NA	NA
QAU37133.1\|1045189_1046038_-	hypothetical protein	U5N3V8	Enterobacteria_phage	2.9e-35	35.4
QAU37134.1\|1045998_1047471_-\|transposase	IS21 family transposase	NA	NA	NA	NA
QAU42524.1\|1047752_1048781_-\|transposase	IS110 family transposase	A0A1S7J231	Thermus_phage	1.9e-20	30.4
QAU37135.1\|1049106_1049949_+	hypothetical protein	NA	NA	NA	NA
QAU37136.1\|1050314_1052378_+	ATP-binding protein	NA	NA	NA	NA
QAU37137.1\|1052374_1052968_+	hypothetical protein	NA	NA	NA	NA
QAU37138.1\|1053025_1054525_+\|transposase	IS21 family transposase	A0A2L1IVA1	Escherichia_phage	6.0e-15	28.1
QAU37139.1\|1054524_1055388_+\|transposase	transposase	A0A059NT77	Lactococcus_phage	3.1e-32	36.2
QAU42525.1\|1055850_1056579_+	SOS response-associated peptidase	A0A291AUP1	Sinorhizobium_phage	4.0e-41	39.1
QAU37140.1\|1056743_1057016_+	hypothetical protein	NA	NA	NA	NA
QAU37141.1\|1057052_1057316_+	hypothetical protein	NA	NA	NA	NA
QAU37142.1\|1057399_1057909_-	hypothetical protein	NA	NA	NA	NA
QAU37143.1\|1057911_1058334_-	hypothetical protein	NA	NA	NA	NA
QAU37144.1\|1058480_1058705_+	hypothetical protein	NA	NA	NA	NA
QAU37145.1\|1059379_1060591_-	hypothetical protein	NA	NA	NA	NA
QAU37146.1\|1061171_1062539_-	hypothetical protein	NA	NA	NA	NA
QAU37147.1\|1063513_1064767_+	hypothetical protein	NA	NA	NA	NA
QAU37148.1\|1064744_1065719_+	MoxR family ATPase	NA	NA	NA	NA
QAU37149.1\|1065715_1066693_+	hypothetical protein	NA	NA	NA	NA
QAU37150.1\|1066689_1069506_+	hypothetical protein	NA	NA	NA	NA
QAU37151.1\|1069889_1071485_-	hypothetical protein	NA	NA	NA	NA
QAU37152.1\|1071664_1076077_-	hypothetical protein	NA	NA	NA	NA
QAU37153.1\|1076196_1077783_-	hypothetical protein	NA	NA	NA	NA
QAU37154.1\|1078319_1079879_-	hypothetical protein	NA	NA	NA	NA
QAU37155.1\|1080350_1081646_+	DUF4071 domain-containing protein	NA	NA	NA	NA
QAU37156.1\|1081680_1082853_+	patatin	NA	NA	NA	NA
QAU37157.1\|1082882_1083461_-	hypothetical protein	NA	NA	NA	NA
QAU37158.1\|1083636_1083804_-	hypothetical protein	NA	NA	NA	NA
QAU37159.1\|1084129_1085182_+	hypothetical protein	NA	NA	NA	NA
QAU37160.1\|1085660_1086847_-\|transposase	IS3 family transposase	S5WIU1	Leptospira_phage	5.2e-46	41.2

DBSCAN-SWA_2

4224278 : 4233300

uncultured_Mediterranean_phage(87.5%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
QAU39740.1\|4224278_4225643_-	peptidoglycan-binding LysM	Q8SBN9	Clostridium_phage	4.0e-18	40.9
QAU39741.1\|4225752_4226403_-	protein-L-isoaspartate O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.3e-27	48.8
QAU42820.1\|4226609_4226981_+	response regulator	NA	NA	NA	NA
QAU39742.1\|4226984_4227752_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	3.7e-37	38.4
QAU39743.1\|4227886_4228249_-	hypothetical protein	NA	NA	NA	NA
QAU39744.1\|4228340_4229672_-\|tRNA	serine--tRNA ligase	A0A1B1IVT2	uncultured_Mediterranean_phage	1.7e-98	53.2
QAU39745.1\|4229876_4230689_-	twin-arginine translocase subunit TatC	A0A1B1IVR7	uncultured_Mediterranean_phage	9.3e-55	48.8
QAU39746.1\|4230685_4231210_-	twin-arginine translocase subunit TatB	NA	NA	NA	NA
QAU39747.1\|4231298_4231532_-	twin-arginine translocase TatA/TatE family subunit	A0A1B1IVR9	uncultured_Mediterranean_phage	7.1e-08	63.6
QAU39748.1\|4231698_4232460_-	SMC-Scp complex subunit ScpB	A0A1B1IVT7	uncultured_Mediterranean_phage	4.1e-44	49.7
QAU39749.1\|4232460_4233300_-	segregation/condensation protein A	A0A1B1IVW1	uncultured_Mediterranean_phage	2.0e-31	37.1

DBSCAN-SWA_3

5476133 : 5485294

Escherichia_phage(42.86%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
QAU40800.1\|5476133_5477828_-	chemotaxis protein	A0A1B0V854	Salmonella_phage	5.9e-35	41.9
QAU40801.1\|5478063_5479755_-	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	3.0e-15	53.1
QAU40802.1\|5479924_5481202_-	four-carbon acid sugar kinase family protein	A0A077SLJ7	Escherichia_phage	4.5e-72	41.6
QAU40803.1\|5481198_5481981_-	hydroxypyruvate isomerase	NA	NA	NA	NA
QAU40804.1\|5481994_5482912_-	NAD(P)-dependent oxidoreductase	A0A077SLF7	Escherichia_phage	3.7e-68	48.6
QAU42926.1\|5483002_5483704_+	aldolase	A0A077SK32	Escherichia_phage	1.8e-46	48.8
QAU40805.1\|5483874_5484579_-	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	3.4e-13	26.2
QAU40806.1\|5484562_5485294_-	ABC transporter ATP-binding protein	W5SAS9	Pithovirus	3.0e-12	29.1

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. CP030052

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

140563 : 173703

Enterobacteria_phage(22.22%)

integrase,transposase

attL 134725:134752|attR 146869:146896

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
134725:134752	attL	NA	NA	NA	NA
QAU43210.1\|140563_141757_-\|transposase	IS91 family transposase	NA	NA	NA	NA
QAU43211.1\|141766_142669_-\|integrase	integrase	S5W9T9	Leptospira_phage	2.9e-33	35.1
QAU43212.1\|148396_149641_+\|transposase	IS21 family transposase	U5N3F9	Enterobacteria_phage	4.5e-40	33.9
146869:146896	attR	NA	NA	NA	NA
QAU43213.1\|149640_150438_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	5.3e-63	48.0
QAU43214.1\|151177_151999_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA
QAU43215.1\|152199_153738_+	malonyl-CoA synthase	A0A2H4PQM9	Staphylococcus_phage	9.1e-27	26.3
QAU43216.1\|153771_155160_+	amidase	NA	NA	NA	NA
QAU43217.1\|155459_156134_+	GntR family transcriptional regulator	NA	NA	NA	NA
QAU43218.1\|157011_157629_+	cysteine hydrolase	NA	NA	NA	NA
QAU43219.1\|157889_159212_+	CapA family protein	NA	NA	NA	NA
QAU43220.1\|159384_160487_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	3.6e-09	26.8
QAU43823.1\|160967_161567_-	YecA family protein	NA	NA	NA	NA
QAU43221.1\|161614_162160_-	hypothetical protein	A0A218MNE7	uncultured_virus	6.3e-23	37.4
QAU43222.1\|162162_162762_-	hypothetical protein	NA	NA	NA	NA
QAU43223.1\|163287_164913_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
QAU43224.1\|164909_165887_+	ABC transporter permease	NA	NA	NA	NA
QAU43225.1\|165883_166804_+	ABC transporter permease	NA	NA	NA	NA
QAU43226.1\|166803_168546_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.2e-21	29.7
QAU43227.1\|170114_170927_-	hypothetical protein	A0A059NT77	Lactococcus_phage	8.5e-32	35.1
QAU43228.1\|170923_172393_-\|transposase	IS21 family transposase	NA	NA	NA	NA
QAU43824.1\|172674_173703_-\|transposase	IS110 family transposase	A0A1S7J231	Thermus_phage	1.9e-20	30.4

DBSCAN-SWA_2

188534 : 267975

Acidithiobacillus_phage(18.75%)

integrase,transposase

attL 172388:172447|attR 252899:254303

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
172388:172447	attL	NA	NA	NA	NA
QAU43235.1\|188534_190049_+\|transposase	ISNCY family transposase	NA	NA	NA	NA
QAU43236.1\|191832_192423_-	YecA family protein	NA	NA	NA	NA
QAU43237.1\|194060_194414_-	IS66 family insertion sequence hypothetical protein	A0A0P0ZBY2	Stx2-converting_phage	3.3e-17	45.1
QAU43238.1\|194410_194842_-	IS66 family insertion sequence hypothetical protein	NA	NA	NA	NA
QAU43239.1\|195298_195517_+	hypothetical protein	NA	NA	NA	NA
QAU43240.1\|201541_201814_+	hypothetical protein	NA	NA	NA	NA
QAU43241.1\|202097_202445_+	IS66 family insertion sequence hypothetical protein	A0A0P0ZDM8	Stx2-converting_phage	4.0e-23	49.1
QAU43242.1\|202515_202737_+	hypothetical protein	NA	NA	NA	NA
QAU43243.1\|204335_205256_-\|transposase	IS21 family transposase	K4I413	Acidithiobacillus_phage	2.4e-75	52.8
QAU43244.1\|205526_205766_-	hypothetical protein	NA	NA	NA	NA
QAU43245.1\|205762_206956_-\|transposase	IS91 family transposase	NA	NA	NA	NA
QAU43246.1\|206965_207868_-\|integrase	integrase	S5W9T9	Leptospira_phage	2.9e-33	35.1
QAU43247.1\|207956_208118_-	hypothetical protein	NA	NA	NA	NA
QAU43248.1\|208254_208566_+	hypothetical protein	A0A0C5AJ30	Paenibacillus_phage	2.0e-05	38.0
QAU43249.1\|208828_210133_+\|transposase	IS110 family transposase	Q9JMN8	Wolbachia_phage	4.4e-115	49.6
QAU43250.1\|210166_210823_+\|transposase	IS3 family transposase	A0A1B3AZE5	Gordonia_phage	3.4e-23	35.5
QAU43251.1\|212777_214049_-	hypothetical protein	NA	NA	NA	NA
QAU43252.1\|214147_214828_-	hypothetical protein	NA	NA	NA	NA
QAU43253.1\|215074_215719_+	hypothetical protein	K4I413	Acidithiobacillus_phage	9.7e-47	44.7
QAU43825.1\|215733_216495_+\|transposase	transposase	K4HZD4	Acidithiobacillus_phage	1.7e-66	53.3
QAU43254.1\|216870_217224_+	IS66 family insertion sequence hypothetical protein	NA	NA	NA	NA
QAU43255.1\|218823_220062_+\|integrase	integrase	A0A0K2CP59	Brevibacillus_phage	8.4e-07	30.2
QAU43826.1\|220980_221982_+\|integrase	integrase	A0A2K9VH72	Gordonia_phage	1.6e-11	26.9
QAU43256.1\|222887_224075_-	crotonyl-CoA carboxylase/reductase	NA	NA	NA	NA
QAU43257.1\|224682_226224_-	long-chain fatty acid--CoA ligase	NA	NA	NA	NA
QAU43827.1\|227941_229333_+	MATE family efflux transporter	NA	NA	NA	NA
QAU43258.1\|230510_230831_+	hypothetical protein	NA	NA	NA	NA
QAU43259.1\|232115_233144_-\|transposase	IS110 family transposase	NA	NA	NA	NA
QAU43260.1\|233272_234025_-	hypothetical protein	NA	NA	NA	NA
QAU43261.1\|235315_236788_-\|transposase	IS21 family transposase	NA	NA	NA	NA
QAU43828.1\|237069_238098_-\|transposase	IS110 family transposase	A0A1S7J231	Thermus_phage	1.9e-20	30.4
QAU43262.1\|239073_239409_-	IS66 family insertion sequence hypothetical protein	NA	NA	NA	NA
QAU43263.1\|240206_240932_+	hypothetical protein	NA	NA	NA	NA
QAU43829.1\|241377_242658_+	diaminobutyrate--2-oxoglutarate transaminase	A0A1V0SKB7	Klosneuvirus	8.1e-21	24.1
QAU43264.1\|242802_242994_+	hypothetical protein	NA	NA	NA	NA
QAU43265.1\|243238_244324_-	uridylate kinase	NA	NA	NA	NA
QAU43266.1\|245586_247191_+	RNA polymerase sigma-54 factor	NA	NA	NA	NA
QAU43267.1\|249709_249916_+	cold-shock protein	Q9AZD3	Lactococcus_phage	4.5e-06	43.1
QAU43268.1\|250022_250223_+	hypothetical protein	NA	NA	NA	NA
QAU43269.1\|250622_251471_-	hypothetical protein	A0A059NT77	Lactococcus_phage	1.2e-31	34.5
QAU43270.1\|251431_252904_-\|transposase	IS21 family transposase	NA	NA	NA	NA
QAU43830.1\|253185_254214_-\|transposase	IS110 family transposase	A0A1S7J231	Thermus_phage	1.9e-20	30.4
QAU43271.1\|258939_259251_+	hypothetical protein	NA	NA	NA	NA
252899:254303	attR	NA	NA	NA	NA
QAU43272.1\|259259_260297_+\|transposase	IS630 family transposase	NA	NA	NA	NA
QAU43273.1\|260514_261441_+	hypothetical protein	NA	NA	NA	NA
QAU43274.1\|262392_262596_-	hypothetical protein	NA	NA	NA	NA
QAU43275.1\|262882_263596_+	hypothetical protein	NA	NA	NA	NA
QAU43276.1\|263903_264284_-	response regulator	NA	NA	NA	NA
QAU43831.1\|264340_265000_-	DNA-binding response regulator	NA	NA	NA	NA
QAU43277.1\|266586_267975_-\|transposase	IS5/IS1182 family transposase	NA	NA	NA	NA

DBSCAN-SWA_3

951331 : 958349

Pseudomonas_phage(42.86%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
QAU43793.1\|951331_952585_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	1.5e-27	30.0
QAU43794.1\|953991_954186_-	hypothetical protein	A0A0P0ZBY2	Stx2-converting_phage	1.8e-09	58.7
QAU43889.1\|954219_955446_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	1.1e-27	29.7
QAU43795.1\|956007_956226_-	hypothetical protein	A0A0P0ZDM8	Stx2-converting_phage	7.6e-12	50.0
QAU43796.1\|956222_956624_-	IS66 family insertion sequence hypothetical protein	A0A1B0YZU7	Pseudomonas_phage	5.1e-06	56.5
QAU43797.1\|956920_957622_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	4.5e-13	29.5
QAU43798.1\|957614_958349_-	ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	4.8e-10	23.1

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. CP030051

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. CP030052

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