CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Prophage number
CP029801	Salmonella enterica subsp. enterica serovar Anatum strain R16.0676 plasmid pR16.0676_34k, complete sequence	0 crisprs	NA	0
CP029800	Salmonella enterica subsp. enterica serovar Anatum strain R16.0676 chromosome, complete genome	0 crisprs	DinG,WYL,DEDDh,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3	6
CP029802	Salmonella enterica subsp. enterica serovar Anatum strain R16.0676 plasmid pR16.0676_90k, complete sequence	0 crisprs	DEDDh	1

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

310431 : 319513

Ralstonia_phage(16.67%)

protease,integrase

attL 308824:308836|attR 328010:328022

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
308824:308836	attL	NA	NA	NA	NA
AWU80058.1\|310431_311673_-\|integrase	site-specific integrase	A0A077KET4	Ralstonia_phage	2.5e-75	40.7
AWU80059.1\|311639_311828_-	hypothetical protein	NA	NA	NA	NA
AWU80060.1\|312200_312578_+\|integrase	integrase	NA	NA	NA	NA
AWU80061.1\|312739_312937_+	hypothetical protein	NA	NA	NA	NA
AWU80062.1\|313149_315426_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	6.2e-165	42.3
AWU80063.1\|315456_315777_-\|protease	ATP-dependent Clp protease adaptor ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	4.5e-13	45.7
AWU80064.1\|316100_316322_+	cold shock domain protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	9.3e-18	64.2
AWU80065.1\|316276_316471_-	hypothetical protein	NA	NA	NA	NA
AWU80066.1\|316451_318398_-	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	9.1e-40	42.3
AWU80067.1\|318394_319513_-	macrolide transporter subunit MacA	A0A140XAI1	Dickeya_phage	1.4e-08	38.9
328010:328022	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1710059 : 1754837

Burkholderia_phage(40.91%)

tail,plate,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWU81322.1\|1710059_1711058_-\|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	NA	NA	NA	NA
AWU81323.1\|1711145_1712456_-	conjugal transfer protein	NA	NA	NA	NA
AWU81324.1\|1712702_1713218_+	transcriptional regulator Zur	NA	NA	NA	NA
AWU81325.1\|1713317_1713527_-	CsbD family protein	NA	NA	NA	NA
AWU84116.1\|1713548_1713662_-	hypothetical protein	NA	NA	NA	NA
AWU81326.1\|1713658_1714984_-	MATE family efflux transporter	NA	NA	NA	NA
AWU81327.1\|1715162_1715771_-	LexA repressor	Q9G0C2	Lactococcus_phage	1.0e-13	38.0
AWU81328.1\|1715879_1716248_-	diacylglycerol kinase	NA	NA	NA	NA
AWU81329.1\|1716418_1718839_+	glycerol-3-phosphate 1-O-acyltransferase	NA	NA	NA	NA
AWU81330.1\|1718937_1719810_-	4-hydroxybenzoate octaprenyltransferase	NA	NA	NA	NA
AWU81331.1\|1719823_1720321_-	chorismate--pyruvate lyase	NA	NA	NA	NA
AWU81332.1\|1720501_1721419_-	maltose operon protein MalM	NA	NA	NA	NA
AWU81333.1\|1721582_1722941_-	maltoporin	NA	NA	NA	NA
AWU81334.1\|1723029_1724139_-	maltose/maltodextrin import ATP-binding protein MalK	Q6GZ03	Mycoplasma_phage	6.2e-17	47.2
AWU81335.1\|1724500_1725691_+	maltose/maltodextrin ABC transporter substrate-binding protein MalE	NA	NA	NA	NA
AWU81336.1\|1725822_1727367_+	maltose ABC transporter permease MalF	NA	NA	NA	NA
AWU81337.1\|1727381_1728272_+	maltose ABC transporter permease	NA	NA	NA	NA
AWU81338.1\|1728437_1728848_-	phosphate-starvation-inducible protein PsiE	NA	NA	NA	NA
AWU81339.1\|1728990_1731087_-	YjbH domain-containing protein	NA	NA	NA	NA
AWU81340.1\|1731086_1731824_-	hypothetical protein	NA	NA	NA	NA
AWU81341.1\|1731820_1732459_-	YjbF family lipoprotein	NA	NA	NA	NA
AWU81342.1\|1732522_1732765_-	outer membrane protein	NA	NA	NA	NA
AWU81343.1\|1733208_1734858_-	glucose-6-phosphate isomerase	NA	NA	NA	NA
AWU81344.1\|1735202_1736552_+	lysine-sensitive aspartokinase 3	NA	NA	NA	NA
AWU81345.1\|1736682_1737030_-	DNA-binding protein	Q6QIE8	Burkholderia_phage	4.9e-21	51.5
AWU81346.1\|1737605_1737893_+	hypothetical protein	Q6QIC8	Burkholderia_phage	5.1e-16	48.1
AWU81347.1\|1737895_1738501_+	lytic transglycosylase domain-containing protein	Q5ZQZ1	Pseudomonas_phage	6.5e-61	60.4
AWU81348.1\|1738513_1738828_+	hypothetical protein	Q6QIC4	Burkholderia_phage	6.4e-20	49.1
AWU81349.1\|1738987_1739443_+	hypothetical protein	NA	NA	NA	NA
AWU81350.1\|1739439_1739637_+	hypothetical protein	Q6QIB1	Burkholderia_phage	6.6e-07	52.9
AWU81351.1\|1739626_1741054_+\|tail	phage tail sheath family protein	A4JWK5	Burkholderia_virus	8.1e-195	71.2
AWU81352.1\|1741053_1741578_+\|tail	phage major tail tube protein	Q6QIA9	Burkholderia_phage	8.1e-68	69.5
AWU81353.1\|1741629_1741947_+\|tail	phage tail assembly protein	NA	NA	NA	NA
AWU81354.1\|1741906_1742035_+\|tail	GpE family phage tail protein	NA	NA	NA	NA
AWU81355.1\|1742131_1744486_+\|tail	phage tail tape measure protein	A4JWL0	Burkholderia_virus	3.1e-66	30.6
AWU81356.1\|1744485_1745439_+	chemotaxis protein	A4JWL1	Burkholderia_virus	7.9e-37	51.5
AWU81357.1\|1745438_1745648_+	hypothetical protein	A4JWL2	Burkholderia_virus	9.8e-17	60.3
AWU81358.1\|1745635_1746679_+	phage protein D	Q6QIA2	Burkholderia_phage	4.2e-76	45.1
AWU81359.1\|1746688_1747411_+\|plate	phage baseplate assembly protein V	A0A067ZIM2	Vibrio_phage	3.9e-12	42.0
AWU81360.1\|1747738_1748101_+	GtrA family protein	I1TED9	Salmonella_phage	1.2e-43	70.8
AWU81361.1\|1748097_1749027_+	glycosyltransferase	S5FKN0	Shigella_phage	1.4e-150	84.1
AWU81362.1\|1749026_1750574_+	hypothetical protein	B9UDL6	Salmonella_phage	3.8e-49	29.9
AWU81363.1\|1750737_1751097_+\|plate	baseplate protein	Q6QIA0	Burkholderia_phage	2.8e-35	64.2
AWU81364.1\|1751087_1752203_+\|plate	baseplate protein	Q6QI99	Burkholderia_phage	4.1e-101	52.0
AWU81365.1\|1752195_1752828_+\|tail	phage tail protein I	Q6QI98	Burkholderia_phage	1.9e-23	55.6
AWU81366.1\|1752830_1754312_+\|tail	phage tail protein	A0A0M3ULF6	Salmonella_phage	1.3e-51	51.7
AWU81367.1\|1754321_1754837_+\|tail	tail fiber assembly protein	A0A0U2QV64	Escherichia_phage	3.4e-34	41.2

DBSCAN-SWA_3

3760429 : 3769600

Enterobacteria_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWU83177.1\|3760429_3761377_+	ABC transporter ATP-binding protein	F2Y1V5	Organic_Lake_phycodnavirus	3.7e-10	27.8
AWU83178.1\|3761360_3762092_+	ABC transporter permease	NA	NA	NA	NA
AWU83179.1\|3762072_3762180_-	hypothetical protein	NA	NA	NA	NA
AWU83180.1\|3762239_3762971_-	transcriptional regulator	Q9EYF2	Enterobacteria_phage	4.5e-101	87.9
AWU83181.1\|3763193_3764879_+	sensor histidine kinase	Q9EYF3	Enterobacteria_phage	6.9e-278	91.1
AWU83182.1\|3764875_3765595_+	DNA-binding response regulator	NA	NA	NA	NA
AWU83183.1\|3765641_3766109_+	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	3.9e-74	90.3
AWU83184.1\|3766165_3766696_-	DUF1307 domain-containing protein	NA	NA	NA	NA
AWU83185.1\|3766867_3767326_-	DUF1307 domain-containing protein	Q9EYF5	Enterobacteria_phage	8.4e-53	72.5
AWU83186.1\|3767566_3769600_-\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	1.0e-54	27.6

DBSCAN-SWA_4

3837692 : 3843989

Enterobacteria_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWU83240.1\|3837692_3839096_+	colanic acid biosynthesis protein WcaM	A0A291LBB9	Klebsiella_phage	3.1e-21	26.5
AWU83241.1\|3839273_3840167_+	UTP--glucose-1-phosphate uridylyltransferase	A0A127AW70	Bacillus_phage	4.8e-44	42.2
AWU83242.1\|3840543_3841629_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	1.6e-102	53.9
AWU83243.1\|3841628_3842528_+	NAD(P)-dependent oxidoreductase	A0A291LA50	Escherichia_phage	1.4e-30	36.3
AWU84198.1\|3842575_3843454_+	glucose-1-phosphate thymidylyltransferase	I7I009	Enterobacteria_phage	2.3e-107	64.1
AWU83244.1\|3843458_3843989_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	4.8e-52	57.1

DBSCAN-SWA_5

3950143 : 3961528

Stenotrophomonas_phage(25.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWU83342.1\|3950143_3951406_-	DUF4102 domain-containing protein	B7SYF8	Stenotrophomonas_phage	1.5e-75	41.3
AWU83343.1\|3952051_3952342_-	DUF4102 domain-containing protein	B7SYF8	Stenotrophomonas_phage	8.8e-08	47.4
AWU83344.1\|3952713_3953511_-	protein MtfA	NA	NA	NA	NA
AWU83345.1\|3953771_3954014_+	hypothetical protein	NA	NA	NA	NA
AWU83346.1\|3953991_3954153_+	hypothetical protein	NA	NA	NA	NA
AWU83347.1\|3954279_3954699_+	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	8.5e-36	60.5
AWU83348.1\|3954701_3955970_+	protein UmuC	I6RSM4	Salmonella_phage	9.3e-227	91.9
AWU83349.1\|3956424_3956637_+	cold-shock protein CspJ	A0A1W6JNX5	Morganella_phage	3.9e-21	70.0
AWU84205.1\|3956647_3956836_+	cold-shock protein	NA	NA	NA	NA
AWU83350.1\|3957095_3958289_-	porin OmpS1	Q1MVN1	Enterobacteria_phage	3.0e-110	56.2
AWU83351.1\|3958937_3959249_+	hypothetical protein	NA	NA	NA	NA
AWU83352.1\|3959328_3960024_+	phosphohydrolase	A0A1D6Y7U0	Golden_Marseillevirus	2.8e-07	27.1
AWU83353.1\|3960097_3961528_+	DNA cytosine methyltransferase	E5E3X6	Burkholderia_phage	1.0e-104	57.4

DBSCAN-SWA_6

4064796 : 4071410

Pectobacterium_phage(16.67%)

integrase

attL 4067006:4067028|attR 4079129:4079151

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AWU83462.1\|4064796_4065027_-	DNA polymerase III subunit theta	H9C187	Pectobacterium_phage	2.9e-14	60.3
AWU83463.1\|4065164_4065539_+	CopC domain-containing protein YobA	NA	NA	NA	NA
AWU83464.1\|4065539_4066415_+	hypothetical protein	NA	NA	NA	NA
AWU83465.1\|4066431_4066785_+	DUF2511 domain-containing protein	NA	NA	NA	NA
AWU84209.1\|4066842_4066962_+	hypothetical protein	NA	NA	NA	NA
4067006:4067028	attL	NA	NA	NA	NA
AWU83466.1\|4067156_4068236_-\|integrase	integrase	A0A2H4IYC8	uncultured_Caudovirales_phage	6.3e-99	52.0
AWU83467.1\|4068232_4069339_-	exodeoxyribonuclease 8	Q9QF34	Lambdoid_phage	1.4e-53	65.0
AWU83468.1\|4069369_4069600_+	glycoside hydrolase family 19 protein	Q8HA86	Salmonella_phage	6.1e-28	93.7
AWU83469.1\|4069653_4070187_+	DUF2514 domain-containing protein	A0A291LBG9	Klebsiella_phage	5.4e-11	43.0
AWU83470.1\|4070443_4070611_-	lytic enzyme	NA	NA	NA	NA
AWU83471.1\|4070675_4070864_-	hypothetical protein	NA	NA	NA	NA
AWU83472.1\|4070918_4071410_+	DUF1441 family protein	Q9EYD0	Enterobacteria_phage	7.1e-42	56.2
4079129:4079151	attR	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. CP029802

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

15132 : 51241

Salmonella_phage(28.57%)

transposase,integrase

attL 9539:9557|attR 28927:28945

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
9539:9557	attL	NA	NA	NA	NA
AWU84301.1\|15132_16143_-\|integrase	integrase	A0A0K0N6I5	Gordonia_phage	3.1e-07	31.9
AWU84302.1\|16145_16682_-	hypothetical protein	NA	NA	NA	NA
AWU84303.1\|16674_16962_-	hypothetical protein	NA	NA	NA	NA
AWU84304.1\|16980_17301_-	hypothetical protein	NA	NA	NA	NA
AWU84305.1\|17523_18126_+	hypothetical protein	NA	NA	NA	NA
AWU84306.1\|18141_18594_-	hypothetical protein	NA	NA	NA	NA
AWU84307.1\|18760_19096_-	hypothetical protein	NA	NA	NA	NA
AWU84308.1\|19354_19627_-	hypothetical protein	NA	NA	NA	NA
AWU84309.1\|20070_20775_+\|transposase	IS6 family transposase IS15DIV	A0A077SL39	Escherichia_phage	1.8e-139	100.0
AWU84310.1\|21290_22718_-	DNA cytosine methyltransferase	NA	NA	NA	NA
AWU84311.1\|22721_23222_-	hypothetical protein	I3UMJ0	Colwellia_phage	1.7e-19	43.3
AWU84312.1\|23230_23563_-	hypothetical protein	NA	NA	NA	NA
AWU84396.1\|23547_23979_-	hypothetical protein	NA	NA	NA	NA
AWU84313.1\|24046_24721_-	thymidylate kinase	NA	NA	NA	NA
AWU84314.1\|24695_24977_-	hypothetical protein	NA	NA	NA	NA
AWU84315.1\|24969_25347_-	hypothetical protein	A0A2H4P7P5	Pseudomonas_phage	2.2e-22	49.6
AWU84316.1\|25900_26536_+	restriction endonuclease subunit M	NA	NA	NA	NA
AWU84317.1\|26588_26861_-	hypothetical protein	NA	NA	NA	NA
AWU84318.1\|26909_28091_-	ParB/RepB/Spo0J family partition protein	I3NLC2	Bifidobacterium_phage	2.4e-11	28.7
AWU84319.1\|28094_28880_-	ParA family protein	A0A1X9IGI7	Lactococcus_phage	6.1e-11	26.4
AWU84320.1\|29053_29365_-	hypothetical protein	NA	NA	NA	NA
28927:28945	attR	NA	NA	NA	NA
AWU84321.1\|29671_30487_+	sulfonamide-resistant dihydropteroate synthase Sul2	A0A0B5J4J5	Pandoravirus	5.9e-09	27.6
AWU84322.1\|30547_31351_+	aminoglycoside O-phosphotransferase APH(3'')-Ib	NA	NA	NA	NA
AWU84323.1\|31350_32187_+	aminoglycoside O-phosphotransferase APH(6)-Id	NA	NA	NA	NA
AWU84324.1\|32492_32735_+	relaxase	NA	NA	NA	NA
AWU84325.1\|32766_33444_-	TetR family transcriptional regulator	NA	NA	NA	NA
AWU84326.1\|33522_34722_+	tetracycline efflux MFS transporter Tet(A)	NA	NA	NA	NA
AWU84327.1\|34988_35294_-	LysR family transcriptional regulator	NA	NA	NA	NA
AWU84328.1\|35321_36536_-	chloramphenicol/florfenicol efflux MFS transporter FloR	S4TR35	Salmonella_phage	5.5e-19	28.7
AWU84329.1\|36752_37637_-	DUF3363 domain-containing protein	NA	NA	NA	NA
AWU84330.1\|37667_39161_-\|transposase	IS91 family transposase	NA	NA	NA	NA
AWU84331.1\|39371_39596_-	hypothetical protein	NA	NA	NA	NA
AWU84332.1\|39592_40330_-	resolvase	NA	NA	NA	NA
AWU84333.1\|40436_40928_+	hypothetical protein	NA	NA	NA	NA
AWU84334.1\|40961_41666_-\|transposase	IS6 family transposase IS15DIV	A0A077SL39	Escherichia_phage	1.8e-139	100.0
AWU84397.1\|41891_42212_+\|transposase	transposase	NA	NA	NA	NA
AWU84335.1\|42249_42807_+	recombinase family protein	A0A1B0V7I5	Salmonella_phage	5.8e-48	81.3
AWU84336.1\|42809_45782_+\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	0.0e+00	73.1
AWU84337.1\|45860_46865_+\|transposase	IS110-like element IS4321 family transposase	NA	NA	NA	NA
AWU84338.1\|47046_47226_-	hypothetical protein	NA	NA	NA	NA
AWU84398.1\|47600_47948_+	hypothetical protein	A0A1V0SB21	Catovirus	2.6e-06	39.4
AWU84339.1\|47947_48508_+	trimethoprim-resistant dihydrofolate reductase DfrA23	A0A076FMI9	Aureococcus_anophage	1.6e-05	29.0
AWU84340.1\|48488_48935_+	hypothetical protein	NA	NA	NA	NA
AWU84341.1\|48960_49578_+	hypothetical protein	G3BM17	Salmonella_phage	2.3e-05	28.3
AWU84342.1\|49699_51241_-\|transposase	IS91 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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. CP029800

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. CP029802

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