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_CP024868	Vibrio cholerae strain A1552 chromosome II, complete sequence	0 crisprs	PD-DExK,csa3,cas3	0	0	0	0
NZ_CP024867	Vibrio cholerae strain A1552 chromosome I, complete sequence	0 crisprs	DinG,csa3,DEDDh,cas3,WYL,csx1,RT	0	0	6	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

Vibrio_phage(33.33%)

integrase,transposase,tRNA

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
WP_100068541.1\|275451_276628_+\|transposase	IS3 family transposase	Q716C2	Shigella_phage	8.6e-118	65.1
276531:276543	attL	NA	NA	NA	NA
WP_001129565.1\|276664_277906_-\|integrase	tyrosine-type recombinase/integrase	A0A1V0E8G8	Vibrio_phage	9.1e-110	47.3
WP_000372618.1\|278291_280169_-	RNA polymerase sigma factor RpoD	A0A2I7SAT0	Vibrio_phage	1.5e-34	32.9
WP_000907210.1\|280267_282031_-	DNA primase	A0A1S5RG58	Helicobacter_phage	1.1e-44	30.7
WP_001173892.1\|282120_282564_-	GatB/YqeY domain-containing protein	A0A292GL36	Xanthomonas_phage	3.7e-29	49.3
WP_001145625.1\|282593_282809_-	30S ribosomal protein S21	NA	NA	NA	NA
WP_001220122.1\|283049_284069_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	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
WP_000698379.1\|290238_290991_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.0e-69	53.3
WP_000002982.1\|290983_291610_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_053036405.1\|291609_292539_+	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.7e-05	34.7
WP_000116737.1\|292612_293620_+	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_001894770.1\|293712_296301_-	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.2e-33	23.0
WP_001279365.1\|296568_297456_-	cysteine synthase CysM	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
WP_000775253.1\|529079_530294_+	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5
WP_000331703.1\|530330_530714_+	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_000301571.1\|530774_531098_+	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_001105747.1\|531146_531662_+	co-chaperone HscB	NA	NA	NA	NA
WP_001196560.1\|531685_533536_+	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
WP_001124187.1\|533549_533888_+	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_000872176.1\|533936_534131_+	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_000107237.1\|534350_535640_+	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
WP_001162850.1\|535843_536272_+	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4

DBSCAN-SWA_4

1275275 : 1361892

Vibrio_phage(45.71%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_149591715.1\|1275275_1277381_-	RTX toxin T1SS ABC transporter subunit RtxB	W8CYL7	Bacillus_phage	4.9e-39	27.1
WP_001906284.1\|1277807_1278155_+	hypothetical protein	NA	NA	NA	NA
WP_001881196.1\|1278180_1278642_+	RTX toxin-activating lysine-acyltransferase RtxC	NA	NA	NA	NA
WP_000517826.1\|1278665_1292303_+	MARTX multifunctional-autoprocessing repeats-in-toxin holotoxin RtxA	B3Y8K3	Vibrio_virus	8.4e-07	100.0
WP_000053920.1\|1292670_1292895_-	RstC protein	U5TMI6	Satellite_phage	1.1e-34	100.0
WP_001911551.1\|1292988_1293339_-	hypothetical protein	U5TMH5	Satellite_phage	1.0e-63	100.0
WP_000743997.1\|1293340_1294420_-	replication initiation factor domain-containing protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_000693566.1\|1294545_1294884_+	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000593522.1\|1295496_1295871_-	cholera enterotoxin binding subunit CtxB	Q77DH7	Vibrio_virus	7.8e-65	100.0
WP_001881225.1\|1295867_1296644_-	cholera enterotoxin catalytic subunit CtxA	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
WP_000021616.1\|1296742_1297942_-	zonula occludens toxin ZOT	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
WP_000979342.1\|1297938_1298232_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_001268534.1\|1298228_1299416_-\|coat	minor coat protein pIII	A0A142I701	Vibrio_phage	1.4e-200	100.0
WP_000493022.1\|1299522_1299771_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_000842207.1\|1299906_1300263_-	hypothetical protein	A0A0N9HJ67	Vibrio_phage	9.7e-65	100.0
WP_000743997.1\|1300264_1301344_-	replication initiation factor domain-containing protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_000693566.1\|1301469_1301808_+	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000170634.1\|1302297_1302882_-	DNA-binding protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
WP_001161489.1\|1302874_1303042_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_001052672.1\|1303119_1303812_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_000512956.1\|1303941_1304211_-	hypothetical protein	NA	NA	NA	NA
WP_001881266.1\|1304230_1305799_-	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
WP_000005769.1\|1305975_1306527_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001161489.1\|1307725_1307893_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_001052672.1\|1307970_1308663_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_000512956.1\|1308792_1309062_-	hypothetical protein	NA	NA	NA	NA
WP_001881266.1\|1309081_1310650_-	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
WP_000005769.1\|1310826_1311378_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_156991674.1\|1311722_1312908_+\|transposase	IS3-like element ISVch4 family transposase	Q716C2	Shigella_phage	1.5e-117	65.1
WP_000948761.1\|1313817_1314129_-	hypothetical protein	E3U9J1	Vibrio_phage	6.6e-09	100.0
WP_001918575.1\|1314287_1314605_-	DUF3634 family protein	NA	NA	NA	NA
WP_000877146.1\|1314624_1315074_-	macrodomain Ter protein MatP	NA	NA	NA	NA
WP_000194428.1\|1315237_1316887_+\|protease	Lon protease family protein	NA	NA	NA	NA
WP_001180252.1\|1316951_1317470_+	bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase	NA	NA	NA	NA
WP_001881287.1\|1317552_1317726_-	ribosome modulation factor	NA	NA	NA	NA
WP_000087036.1\|1317893_1319588_-	DUF3466 family protein	NA	NA	NA	NA
WP_001174034.1\|1319593_1321513_-	ABC transporter ATP-binding protein	A0A2K9L3Z8	Tupanvirus	7.6e-55	29.7
WP_000631987.1\|1321490_1321733_-	glutaredoxin family protein	NA	NA	NA	NA
WP_001077794.1\|1321741_1323868_-	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	NA	NA	NA
WP_000917529.1\|1324327_1324870_-	cell division protein ZapC	NA	NA	NA	NA
WP_000966885.1\|1325024_1326035_-	quinone-dependent dihydroorotate dehydrogenase	NA	NA	NA	NA
WP_000126926.1\|1326108_1330950_-	NAD-glutamate dehydrogenase	NA	NA	NA	NA
WP_001110339.1\|1331138_1331357_-	DUF2835 domain-containing protein	NA	NA	NA	NA
WP_000377996.1\|1331408_1334033_-	aminopeptidase N	NA	NA	NA	NA
WP_001994019.1\|1334105_1334342_-	ArsR family transcriptional regulator	NA	NA	NA	NA
WP_001241333.1\|1335290_1335803_+	hypothetical protein	NA	NA	NA	NA
WP_001912825.1\|1336119_1337385_+	ATP-binding protein	NA	NA	NA	NA
WP_000347185.1\|1337386_1337809_+	hypothetical protein	NA	NA	NA	NA
WP_000092362.1\|1337872_1338238_-	peptidase M15	A0A2I7RAT1	Vibrio_phage	8.7e-37	60.3
WP_000279700.1\|1338221_1338779_-	hypothetical protein	NA	NA	NA	NA
WP_000291407.1\|1338778_1339786_-	radical SAM protein	NA	NA	NA	NA
WP_001005176.1\|1339802_1340168_-	hypothetical protein	C8ZKF3	Pseudomonas_phage	1.8e-05	46.2
WP_000521739.1\|1340168_1346111_-	fibronectin type III domain-containing protein	M4MHT9	Vibrio_phage	2.0e-98	30.9
WP_000491559.1\|1346114_1346510_-	hypothetical protein	NA	NA	NA	NA
WP_000168946.1\|1346512_1347052_-	hypothetical protein	M4MD40	Vibrio_phage	4.5e-21	35.1
WP_000250921.1\|1347062_1347644_-	hypothetical protein	NA	NA	NA	NA
WP_000907543.1\|1347645_1349958_-	hypothetical protein	A0A1Q1PW43	Pseudoalteromonas_phage	4.4e-09	22.6
WP_000967642.1\|1349974_1350265_-	hypothetical protein	NA	NA	NA	NA
WP_001081280.1\|1350309_1350645_-	hypothetical protein	NA	NA	NA	NA
WP_000907300.1\|1350697_1351168_-	hypothetical protein	NA	NA	NA	NA
WP_001994025.1\|1351181_1351505_-	hypothetical protein	NA	NA	NA	NA
WP_000049624.1\|1351552_1352164_-	hypothetical protein	NA	NA	NA	NA
WP_001252475.1\|1352150_1352498_-\|head,tail	head-tail adaptor protein	NA	NA	NA	NA
WP_000020008.1\|1352509_1353061_-	hypothetical protein	A0A2I7QU98	Vibrio_phage	8.9e-09	28.0
WP_000667008.1\|1353075_1354266_-\|capsid	phage major capsid protein	M4MA06	Vibrio_phage	1.3e-36	33.3
WP_000944879.1\|1354364_1355213_-\|head,protease	HK97 family phage prohead protease	Q6JIM8	Burkholderia_virus	7.0e-29	39.1
WP_000523754.1\|1355175_1356501_-\|portal	phage portal protein	M4MHV5	Vibrio_phage	1.2e-75	38.9
WP_001070130.1\|1356510_1358271_-\|terminase	terminase large subunit	A0A0K1LKI4	Staphylococcus_phage	1.1e-81	35.9
WP_000165579.1\|1358461_1358677_-	hypothetical protein	NA	NA	NA	NA
WP_001046237.1\|1358704_1359385_-	hypothetical protein	NA	NA	NA	NA
WP_001994028.1\|1359381_1359825_-	hypothetical protein	NA	NA	NA	NA
WP_080004477.1\|1359967_1360378_-\|terminase	phage terminase small subunit P27 family	A0A1W6JP17	Morganella_phage	5.8e-05	31.6
WP_000243876.1\|1360848_1361037_-	hypothetical protein	NA	NA	NA	NA
WP_000858033.1\|1361247_1361892_+	antirestriction protein ArdA	G0YPX7	Erwinia_phage	1.1e-10	33.5

DBSCAN-SWA_5

1366547 : 1374274

Diadromus_pulchellus_ascovirus(14.29%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001146354.1\|1366547_1367135_-	deoxynucleoside kinase	F2NYY4	Diadromus_pulchellus_ascovirus	2.1e-08	33.1
WP_000576446.1\|1367154_1367424_-	hypothetical protein	NA	NA	NA	NA
WP_000275003.1\|1367628_1368222_-	deoxynucleoside kinase	A0A249Y6S3	Cherax_quadricarinatus_iridovirus	3.7e-08	30.0
WP_000784089.1\|1368354_1368612_-	hypothetical protein	NA	NA	NA	NA
WP_001912807.1\|1368608_1368893_-	hypothetical protein	A0A142K9B6	Gordonia_phage	3.9e-08	51.9
WP_001044551.1\|1369075_1369936_-	exonuclease	F1D0G7	Vibrio_phage	3.1e-56	43.0
WP_000467314.1\|1370129_1370561_-	tellurite resistance TerB family protein	Q1MVI3	Enterobacteria_phage	2.1e-29	47.9
WP_000983185.1\|1370585_1372640_-	hypothetical protein	A0A0F7DD46	Delftia_phage	7.1e-144	40.8
WP_000046513.1\|1372639_1374274_-	toprim domain-containing protein	L7TLT7	Rhizobium_phage	1.6e-122	49.0

DBSCAN-SWA_6

2198886 : 2205503

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000864130.1\|2198886_2199357_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7
WP_001122865.1\|2199621_2200731_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000493874.1\|2200771_2201425_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001131994.1\|2201429_2202533_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
WP_000543544.1\|2202558_2203008_-	transcriptional regulator NrdR	NA	NA	NA	NA
WP_000366574.1\|2203107_2204358_-	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000210573.1\|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