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
CP024868	Vibrio cholerae strain A1552 chromosome II, complete sequence	0 crisprs	PD-DExK,csa3,cas3	0	0	0	0
CP024867	Vibrio cholerae strain A1552 chromosome I, complete sequence	0 crisprs	DinG,csa3,DEDDh,cas3,WYL,csx1,RT	0	0	8	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

275451 : 284069

Shigella_phage(28.57%)

integrase,transposase

attL 276531:276543|attR 283178:283190

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
AVL21746.1\|275451_275760_+	Transposase	Q716C1	Shigella_phage	1.3e-30	74.2
AVL21747.1\|275759_276629_+\|transposase	putative transposase OrfB	Q716C2	Shigella_phage	2.8e-113	65.6
276531:276543	attL	NA	NA	NA	NA
AVL21748.1\|276664_277906_-\|integrase	Prophage CP4-57 integrase	A0A1V0E8G8	Vibrio_phage	9.1e-110	47.3
AVL21749.1\|278291_280169_-	Sigma-70	A0A2I7SAT0	Vibrio_phage	1.5e-34	32.9
AVL21750.1\|280267_282031_-	DNA primase	A0A1S5RG58	Helicobacter_phage	1.1e-44	30.7
AVL21751.1\|282120_282564_-	hypothetical protein	A0A292GL36	Xanthomonas_phage	3.7e-29	49.3
AVL21752.1\|282593_282809_-	30S ribosomal protein S21	NA	NA	NA	NA
AVL21753.1\|283049_284069_+	t(6)A37 threonylcarbamoyladenosine biosynthesis protein	A0A0R6PI74	Moraxella_phage	2.6e-107	57.4
283178:283190	attR	NA	NA	NA	NA

DBSCAN-SWA_2

290238 : 297456

uncultured_Mediterranean_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL21763.1\|290238_290991_+	5'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.0e-69	53.3
AVL21764.1\|290983_291610_+	Protein-L-isoaspartate O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
AVL21765.1\|291609_292539_+	Murein hydrolase activator NlpD precursor	D7RWE0	Brochothrix_phage	7.7e-05	34.7
AVL21766.1\|292612_293620_+	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
AVL21767.1\|293712_296298_-	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.2e-33	23.0
AVL21768.1\|296568_297456_-	Cysteine synthase B	A0A1X9I5K7	Streptococcus_phage	4.1e-56	41.1

DBSCAN-SWA_3

529079 : 536272

Faustovirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL21959.1\|529079_530294_+	Cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5
AVL21960.1\|530330_530714_+	NifU-like protein	A0A218MKD1	uncultured_virus	5.4e-53	78.2
AVL21961.1\|530774_531098_+	Iron-sulfur cluster assembly protein	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
AVL21962.1\|531146_531662_+	Co-chaperone protein HscB	NA	NA	NA	NA
AVL21963.1\|531685_533536_+	Hsc66	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
AVL21964.1\|533549_533888_+	2Fe-2S ferredoxin	NA	NA	NA	NA
AVL21965.1\|533936_534131_+	FeS assembly protein IscX	NA	NA	NA	NA
AVL21966.1\|534350_535640_+	Peptidase B	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
AVL21967.1\|535843_536272_+	Nucleoside diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4

DBSCAN-SWA_4

1275275 : 1307893

Vibrio_phage(47.37%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL22604.1\|1275275_1277384_-	Alpha-hemolysin translocation ATP-binding protein HlyB	W8CYL7	Bacillus_phage	4.9e-39	27.1
AVL22605.1\|1277807_1278155_+	hypothetical protein	NA	NA	NA	NA
AVL22606.1\|1278246_1278642_+	Hemolysin-activating lysine-acyltransferase HlyC	NA	NA	NA	NA
AVL22607.1\|1278665_1292303_+	Toxin A	B3Y8K3	Vibrio_virus	8.4e-07	100.0
AVL22608.1\|1292670_1292895_-	hypothetical protein	U5TMI6	Satellite_phage	1.1e-34	100.0
AVL22609.1\|1292988_1293360_-	CTX phage RstB protein	U5TMH5	Satellite_phage	3.3e-68	100.0
AVL22610.1\|1293340_1294420_-	DNA replication initiation protein	U5TQR3	Satellite_phage	2.2e-213	100.0
AVL22611.1\|1294545_1294884_+	transcriptional repressor DicA	U5TNA1	Satellite_phage	7.3e-54	100.0
AVL22612.1\|1295496_1295871_-	Choleragenoid	Q77DH7	Vibrio_virus	7.8e-65	100.0
AVL22613.1\|1295867_1296644_-	Cholera enterotoxin, A chain	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
AVL22614.1\|1296742_1297942_-	Zonular occludens toxin	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
AVL22615.1\|1297938_1298223_-	hypothetical protein	A0A0F6YNQ7	Vibrio_phage	4.0e-45	100.0
AVL22616.1\|1298228_1299416_-	hypothetical protein	A0A142I701	Vibrio_phage	1.4e-200	100.0
AVL22617.1\|1299522_1299771_-	hypothetical protein	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
AVL22618.1\|1299763_1299907_-	hypothetical protein	NA	NA	NA	NA
AVL22619.1\|1299906_1300284_-	CTX phage RstB protein	A0A0N9HJ67	Vibrio_phage	3.1e-69	100.0
AVL22620.1\|1300264_1301344_-	DNA replication initiation protein	U5TQR3	Satellite_phage	2.2e-213	100.0
AVL22621.1\|1301469_1301808_+	transcriptional repressor DicA	U5TNA1	Satellite_phage	7.3e-54	100.0
AVL22622.1\|1302297_1302882_-	Phage protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
AVL22623.1\|1302874_1303042_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
AVL22624.1\|1303119_1303812_-	hypothetical protein	NA	NA	NA	NA
AVL22625.1\|1303941_1304226_-	hypothetical protein	NA	NA	NA	NA
AVL22626.1\|1304230_1305799_-	replication initiation protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
AVL22627.1\|1305975_1306527_+	Helix-turn-helix protein	NA	NA	NA	NA
AVL22628.1\|1307565_1307733_-	hypothetical protein	NA	NA	NA	NA
AVL22629.1\|1307725_1307893_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0

DBSCAN-SWA_5

1312282 : 1361892

Vibrio_phage(46.67%)

transposase,capsid,tail,terminase,portal,head,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL22635.1\|1312282_1312909_+\|transposase	putative transposase OrfB	Q716C2	Shigella_phage	1.1e-92	72.9
AVL22636.1\|1313817_1314129_-	hypothetical protein	E3U9J1	Vibrio_phage	6.6e-09	100.0
AVL22637.1\|1314287_1314611_-	hypothetical protein	NA	NA	NA	NA
AVL22638.1\|1314624_1315074_-	Macrodomain Ter protein	NA	NA	NA	NA
AVL22639.1\|1315237_1316887_+\|protease	Lon protease	NA	NA	NA	NA
AVL22640.1\|1316951_1317470_+	3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase	NA	NA	NA	NA
AVL22641.1\|1317552_1317726_-	ribosome modulation factor	NA	NA	NA	NA
AVL22642.1\|1317893_1319588_-	hypothetical protein	NA	NA	NA	NA
AVL22643.1\|1319593_1321513_-	ABC transporter ATP-binding protein uup	A0A2K9L3Z8	Tupanvirus	7.6e-55	29.7
AVL22644.1\|1321490_1321733_-	hypothetical protein	NA	NA	NA	NA
AVL22645.1\|1321741_1323868_-	Ribosomal RNA large subunit methyltransferase K/L	NA	NA	NA	NA
AVL22646.1\|1323839_1323971_-	hypothetical protein	NA	NA	NA	NA
AVL22647.1\|1324327_1324870_-	Z-ring-associated protein C	NA	NA	NA	NA
AVL22648.1\|1325024_1326035_-	Dihydroorotate dehydrogenase (quinone)	NA	NA	NA	NA
AVL22649.1\|1326108_1330950_-	NAD-specific glutamate dehydrogenase	NA	NA	NA	NA
AVL22650.1\|1331408_1334033_-	Aminopeptidase N	NA	NA	NA	NA
AVL22651.1\|1334105_1334432_-	Transcriptional regulator HosA	NA	NA	NA	NA
AVL22652.1\|1334385_1334682_-	hypothetical protein	NA	NA	NA	NA
AVL22653.1\|1335290_1335803_+	hypothetical protein	NA	NA	NA	NA
AVL22654.1\|1336119_1337385_+	hypothetical protein	NA	NA	NA	NA
AVL22655.1\|1337386_1337809_+	hypothetical protein	NA	NA	NA	NA
AVL22656.1\|1337872_1338238_-	Peptidase M15	A0A2I7RAT1	Vibrio_phage	8.7e-37	60.3
AVL22657.1\|1338221_1338779_-	hypothetical protein	NA	NA	NA	NA
AVL22658.1\|1338778_1339786_-	Anaerobic sulfatase-maturating enzyme	NA	NA	NA	NA
AVL22659.1\|1339802_1340168_-	hypothetical protein	C8ZKF3	Pseudomonas_phage	1.8e-05	46.2
AVL22660.1\|1340168_1346111_-	hypothetical protein	M4MHT9	Vibrio_phage	2.0e-98	30.9
AVL22661.1\|1346114_1346510_-	hypothetical protein	NA	NA	NA	NA
AVL22662.1\|1346512_1347052_-	hypothetical protein	M4MD40	Vibrio_phage	4.5e-21	35.1
AVL22663.1\|1347062_1347644_-	hypothetical protein	NA	NA	NA	NA
AVL22664.1\|1347645_1349958_-	hypothetical protein	A0A1Q1PW43	Pseudoalteromonas_phage	4.4e-09	22.6
AVL22665.1\|1349974_1350265_-	hypothetical protein	NA	NA	NA	NA
AVL22666.1\|1350309_1350645_-	hypothetical protein	NA	NA	NA	NA
AVL22667.1\|1350697_1351168_-	hypothetical protein	NA	NA	NA	NA
AVL22668.1\|1351181_1351550_-	hypothetical protein	NA	NA	NA	NA
AVL22669.1\|1351552_1352164_-	hypothetical protein	NA	NA	NA	NA
AVL22670.1\|1352150_1352498_-\|head,tail	Bacteriophage head-tail adaptor	NA	NA	NA	NA
AVL22671.1\|1352509_1353061_-\|head,tail	Phage gp6-like head-tail connector protein	A0A2I7QU98	Vibrio_phage	8.9e-09	28.0
AVL22672.1\|1353075_1354266_-\|capsid	phage major capsid protein, HK97 family	M4MA06	Vibrio_phage	1.3e-36	33.3
AVL22673.1\|1354364_1355213_-\|head,protease	phage prohead protease, HK97 family	Q6JIM8	Burkholderia_virus	7.0e-29	39.1
AVL22674.1\|1355175_1356501_-\|portal	phage portal protein, HK97 family	M4MHV5	Vibrio_phage	1.2e-75	38.9
AVL22675.1\|1356510_1358271_-\|terminase	Phage terminase-like protein, large subunit	A0A0K1LKI4	Staphylococcus_phage	1.1e-81	35.9
AVL22676.1\|1358279_1358462_-	hypothetical protein	NA	NA	NA	NA
AVL22677.1\|1358461_1358677_-	hypothetical protein	NA	NA	NA	NA
AVL22678.1\|1358704_1359385_-	hypothetical protein	NA	NA	NA	NA
AVL22679.1\|1359381_1359987_-	hypothetical protein	NA	NA	NA	NA
AVL22680.1\|1359967_1360474_-\|terminase	putative phage terminase, small subunit, P27 family	K7PHI2	Enterobacteria_phage	1.1e-05	27.1
AVL22681.1\|1360848_1361037_-	hypothetical protein	NA	NA	NA	NA
AVL22682.1\|1361247_1361892_+	Antirestriction protein	G0YPX7	Erwinia_phage	1.1e-10	33.5

DBSCAN-SWA_6

1366547 : 1374274

Diadromus_pulchellus_ascovirus(14.29%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL22691.1\|1366547_1367135_-	thymidylate kinase	F2NYY4	Diadromus_pulchellus_ascovirus	2.1e-08	33.1
AVL22692.1\|1367154_1367424_-	hypothetical protein	NA	NA	NA	NA
AVL22693.1\|1367628_1368222_-	Deoxyadenosine/deoxycytidine kinase	A0A249Y6S3	Cherax_quadricarinatus_iridovirus	3.7e-08	30.0
AVL22694.1\|1368232_1368355_-	hypothetical protein	NA	NA	NA	NA
AVL22695.1\|1368354_1368612_-	hypothetical protein	NA	NA	NA	NA
AVL22696.1\|1368608_1369106_-	hypothetical protein	A0A142K9B6	Gordonia_phage	6.8e-08	51.9
AVL22697.1\|1369075_1369936_-	exonuclease	F1D0G7	Vibrio_phage	3.1e-56	43.0
AVL22698.1\|1370129_1370561_-	Tellurite resistance protein	Q1MVI3	Enterobacteria_phage	2.1e-29	47.9
AVL22699.1\|1370585_1372640_-	DNA polymerase I	A0A0F7DD46	Delftia_phage	7.1e-144	40.8
AVL22700.1\|1372639_1374274_-	DNA primase	L7TLT7	Rhizobium_phage	1.6e-122	49.0

DBSCAN-SWA_7

1711890 : 1718790

Vibrio_phage(71.43%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL22979.1\|1711890_1712067_-	putative transcriptional regulator	A0A1V0E8E5	Vibrio_phage	2.8e-09	51.9
AVL22980.1\|1712210_1712687_+	DNA repair protein RadC	NA	NA	NA	NA
AVL22981.1\|1712683_1712821_+	hypothetical protein	NA	NA	NA	NA
AVL22982.1\|1712916_1713483_-	hypothetical protein	M4MHE6	Vibrio_phage	7.5e-11	31.4
AVL22983.1\|1713608_1714235_-\|transposase	putative transposase OrfB	Q716C2	Shigella_phage	1.1e-92	72.9
AVL22984.1\|1714477_1714786_-	Transposase	Q716C1	Shigella_phage	7.1e-32	76.3
AVL22985.1\|1714828_1715869_-	tape measure domain protein	A0A2I7S9D9	Vibrio_phage	2.6e-126	72.5
AVL22986.1\|1716003_1716363_-	Mu-like prophage FluMu protein gp41	A0A2I7S9E0	Vibrio_phage	3.7e-40	67.8
AVL22987.1\|1716411_1716783_-	hypothetical protein	NA	NA	NA	NA
AVL22988.1\|1716843_1717422_-	hypothetical protein	NA	NA	NA	NA
AVL22989.1\|1717440_1717761_-	hypothetical protein	NA	NA	NA	NA
AVL22990.1\|1717747_1718122_-	hypothetical protein	NA	NA	NA	NA
AVL22991.1\|1718523_1718790_-	hypothetical protein	M1Q554	Vibrio_phage	1.4e-07	33.8

DBSCAN-SWA_8

2198886 : 2205503

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVL23429.1\|2198886_2199357_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7
AVL23430.1\|2199621_2200731_-	Riboflavin biosynthesis protein RibBA	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
AVL23431.1\|2200771_2201425_-	Riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
AVL23432.1\|2201429_2202533_-	Riboflavin biosynthesis protein RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
AVL23433.1\|2202558_2203008_-	Transcriptional repressor NrdR	NA	NA	NA	NA
AVL23434.1\|2203107_2204358_-	Gamma-glutamyl phosphate reductase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
AVL23435.1\|2204369_2205503_-	Glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.4e-64	40.4

Anti-CRISPR protein detection

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