CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NZ_ALUP01000016	Streptococcus agalactiae GB00922 ctg7180000004847, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000007	Streptococcus agalactiae GB00922 ctg7180000004837, whole genome shotgun sequence	0 crisprs	NA	0	0	1
NZ_ALUP01000005	Streptococcus agalactiae GB00922 ctg7180000004835, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000011	Streptococcus agalactiae GB00922 ctg7180000004841, whole genome shotgun sequence	2 crisprs	cas9,cas1,cas2,csn2,csm6	7	2	0
NZ_ALUP01000003	Streptococcus agalactiae GB00922 ctg7180000004833, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000008	Streptococcus agalactiae GB00922 ctg7180000004838, whole genome shotgun sequence	0 crisprs	cas3	0	0	0
NZ_ALUP01000001	Streptococcus agalactiae GB00922 ctg7180000004830, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000013	Streptococcus agalactiae GB00922 ctg7180000004843, whole genome shotgun sequence	0 crisprs	RT,DEDDh	0	2	0
NZ_ALUP01000014	Streptococcus agalactiae GB00922 ctg7180000004844, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000004	Streptococcus agalactiae GB00922 ctg7180000004834, whole genome shotgun sequence	0 crisprs	NA	0	1	0
NZ_ALUP01000006	Streptococcus agalactiae GB00922 ctg7180000004836, whole genome shotgun sequence	0 crisprs	cas3	0	1	0
NZ_ALUP01000009	Streptococcus agalactiae GB00922 ctg7180000004839, whole genome shotgun sequence	0 crisprs	NA	0	1	0
NZ_ALUP01000012	Streptococcus agalactiae GB00922 ctg7180000004842, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000010	Streptococcus agalactiae GB00922 ctg7180000004840, whole genome shotgun sequence	0 crisprs	DinG	0	1	0
NZ_ALUP01000015	Streptococcus agalactiae GB00922 ctg7180000004845, whole genome shotgun sequence	0 crisprs	WYL,DEDDh,RT	0	0	0
NZ_ALUP01000002	Streptococcus agalactiae GB00922 ctg7180000004832, whole genome shotgun sequence	0 crisprs	NA	0	0	0
NZ_ALUP01000017	Streptococcus agalactiae GB00922 ctg7180000004859, whole genome shotgun sequence	0 crisprs	NA	0	0	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

3611 : 9767

Streptococcus_phage(57.14%)

transposase,integrase

attL 504:516|attR 9801:9813

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
504:516	attL	NA	NA	NA	NA
WP_000353149.1\|3611_4268_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.2e-22	31.8
WP_000594360.1\|4277_5555_-	ABC transporter permease	NA	NA	NA	NA
WP_079261184.1\|6300_6462_+	NINE protein	NA	NA	NA	NA
WP_001867107.1\|6634_6844_-\|transposase	transposase	NA	NA	NA	NA
WP_001865698.1\|6969_7230_-\|transposase	IS3 family transposase	A0A0C5AEA5	Paenibacillus_phage	3.4e-11	43.0
WP_001122304.1\|7251_7452_-\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_000640620.1\|7613_8018_-	helix-turn-helix domain-containing protein	A0A0C5AJ29	Paenibacillus_phage	1.3e-20	43.6
WP_001872365.1\|8017_8284_+	hypothetical protein	Q77YW7	Streptococcus_phage	9.2e-20	65.2
WP_079218646.1\|8286_8901_+\|integrase	site-specific integrase	F8HGP4	Streptococcus_phage	9.2e-55	60.7
WP_000965642.1\|9000_9180_-	hypothetical protein	J7KIW4	Streptococcus_phage	2.1e-20	86.2
WP_000356856.1\|9596_9767_+	hypothetical protein	A0A286QNA2	Streptococcus_phage	1.1e-07	63.8
9801:9813	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. NZ_ALUP01000006

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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

87010 : 94214

uncultured_Caudovirales_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001042655.1\|87010_87715_-	transglycosylase SLT domain-containing protein	A0A2H4J6C5	uncultured_Caudovirales_phage	4.2e-27	56.6
WP_000029066.1\|87820_88360_-	LysM peptidoglycan-binding domain-containing protein	A0A249XZV3	Enterococcus_phage	5.8e-21	42.2
WP_000359358.1\|88575_89370_-	energy-coupling factor transporter transmembrane protein EcfT	NA	NA	NA	NA
WP_000510606.1\|89362_90205_-	energy-coupling factor transporter ATPase	W6JKT0	Anomala_cuprea_entomopoxvirus	2.5e-18	25.5
WP_000181757.1\|90180_91020_-	energy-coupling factor transporter ATPase	G9BWD6	Planktothrix_phage	3.5e-20	30.0
WP_000976003.1\|91019_91562_-	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase	NA	NA	NA	NA
WP_000217754.1\|91684_92968_-	insulinase family protein	A0A2K9V7S4	Bandra_megavirus	1.3e-21	33.3
WP_000706188.1\|92969_94214_-	insulinase family protein	A0A1X9I714	Streptococcus_phage	3.7e-87	41.3

Anti-CRISPR protein detection

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

3. NZ_ALUP01000007

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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

Anti-CRISPR protein detection

Acr_ID: NZ_ALUP01000007.1|WP_000384271.1|15440_15767_-|replication-initiator-protein-A

Click the colored protein region to show detailed information

Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NZ_ALUP01000007.1|WP_000384271.1|15440_15767_-|replication-initiator-protein-A

15440_15767_-

108 aa aa

AcrIIA21

hit_Aca_id	identity	query_coverage	hit_coverage
anti_CRISPR3639\|WP_000384271.1\|AcrIIA21\|II-A\|Verified\|Streptococcus	1.0	1	1.0

4. NZ_ALUP01000010

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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

521 : 47763

Streptococcus_phage(67.19%)

head,integrase,tail,portal,capsid,terminase,holin

attL 25944:25957|attR 45466:45479

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000356856.1\|521_692_+	hypothetical protein	A0A286QNA2	Streptococcus_phage	1.1e-07	63.8
WP_000076712.1\|732_933_-	CsbD family protein	J7KJ36	Streptococcus_phage	2.9e-26	100.0
WP_000258211.1\|1042_1342_-	STAS-like domain-containing protein	J7KJ12	Streptococcus_phage	3.8e-46	100.0
WP_001061853.1\|1335_2232_-	sensor histidine kinase	J7KDG8	Streptococcus_phage	1.8e-168	100.0
WP_000257237.1\|2366_3698_-	lysin	Q8HA43	Streptococcus_phage	3.1e-265	99.8
WP_000611524.1\|3823_4078_-\|holin	phage holin	J7KDR1	Streptococcus_phage	1.6e-37	96.4
WP_000215499.1\|4079_4382_-	hypothetical protein	X2KT07	Streptococcus_phage	2.2e-25	59.6
WP_000698337.1\|4394_4607_-	hypothetical protein	J7KDP6	Streptococcus_phage	2.1e-14	60.0
WP_000404431.1\|4581_4908_-	DUF1366 domain-containing protein	J7KDI9	Streptococcus_phage	1.3e-31	68.2
WP_000214867.1\|4921_6913_-	hypothetical protein	J7KC14	Streptococcus_phage	0.0e+00	98.2
WP_000234789.1\|6925_11053_-\|tail	phage tail protein	J7KBT9	Streptococcus_phage	0.0e+00	87.7
WP_001273412.1\|11043_12606_-\|tail	phage tail family protein	J7KH53	Streptococcus_phage	1.4e-245	81.2
WP_000098496.1\|12606_15255_-\|tail	phage tail tape measure protein	Q9G097	Lactococcus_phage	4.0e-107	55.4
WP_025194532.1\|15247_15526_-	hypothetical protein	NA	NA	NA	NA
WP_000659174.1\|15645_15999_-	hypothetical protein	A0A2H4J007	uncultured_Caudovirales_phage	1.7e-21	49.1
WP_000258802.1\|16073_16601_-\|tail	phage major tail protein, TP901-1 family	C9W9I5	Streptococcus_virus	1.9e-45	57.3
WP_000977637.1\|16609_16999_-	DUF3168 domain-containing protein	W6LLG8	Streptococcus_phage	5.7e-26	42.2
WP_000609259.1\|16995_17376_-	hypothetical protein	W6LM73	Streptococcus_phage	6.5e-19	43.7
WP_001270064.1\|17368_17668_-	hypothetical protein	W6LMS9	Streptococcus_phage	8.2e-09	36.0
WP_000411527.1\|17664_18018_-\|head,tail	phage head-tail connector protein	A0A2H4J002	uncultured_Caudovirales_phage	8.8e-26	52.1
WP_001229661.1\|18033_18288_-	hypothetical protein	NA	NA	NA	NA
WP_001185212.1\|18300_19353_-\|capsid	major capsid protein	A0A286QR01	Streptococcus_phage	2.5e-108	58.1
WP_001042771.1\|19352_19736_-\|head	head decoration protein	NA	NA	NA	NA
WP_000774601.1\|19745_20324_-	DUF4355 domain-containing protein	C9E2J3	Enterococcus_phage	2.5e-09	35.3
WP_001042283.1\|20430_20637_-	hypothetical protein	A7J295	Streptococcus_phage	3.8e-05	46.6
WP_000367178.1\|20633_21605_-\|capsid	minor capsid protein	U6E9F1	Streptococcus_phage	8.8e-52	35.8
WP_000940113.1\|21588_23082_-\|portal	phage portal protein	C9W9H5	Streptococcus_virus	1.1e-133	50.7
WP_000859243.1\|23094_24402_-\|terminase	PBSX family phage terminase large subunit	A0A2H4IYR5	uncultured_Caudovirales_phage	2.0e-184	74.8
WP_025194537.1\|24379_24811_-\|terminase	terminase small subunit	A7J290	Streptococcus_phage	2.6e-48	78.2
WP_001132272.1\|24921_25107_+	type II toxin-antitoxin system HicA family toxin	F0PIL1	Enterococcus_phage	3.5e-10	61.3
WP_000964197.1\|25159_25537_+	type II toxin-antitoxin system HicB family antitoxin	I3NLB2	Bifidobacterium_phage	7.4e-15	41.3
WP_000033708.1\|25592_25916_-	hypothetical protein	A0A1W6JHU2	Lactococcus_phage	1.4e-14	40.8
25944:25957	attL	NA	NA	NA	NA
WP_000142566.1\|26463_26898_-	ArpU family phage encoded transcriptional regulator	J7KDQ1	Streptococcus_phage	1.1e-70	93.7
WP_000660741.1\|27285_27552_-	hypothetical protein	NA	NA	NA	NA
WP_000221696.1\|27548_27743_-	hypothetical protein	NA	NA	NA	NA
WP_001105090.1\|27930_28230_-	hypothetical protein	M1PFH6	Streptococcus_phage	1.3e-17	45.4
WP_001019149.1\|28250_28763_-	DUF1642 domain-containing protein	A0A097PAV5	Streptococcus_pyogenes_phage	2.7e-28	46.0
WP_000564605.1\|28759_28903_-	hypothetical protein	NA	NA	NA	NA
WP_000205525.1\|28906_29191_-	hypothetical protein	A3F628	Streptococcus_phage	4.9e-35	81.9
WP_000612739.1\|29187_29604_-	hypothetical protein	Q938M1	Temperate_phage	3.2e-35	61.3
WP_000743215.1\|29617_29887_-	hypothetical protein	Q938M2	Temperate_phage	1.0e-42	91.0
WP_000954649.1\|29883_30168_-	DUF3310 domain-containing protein	A0A1P8VVP5	Streptococcus_phage	1.1e-47	95.7
WP_000127438.1\|30161_30359_-	hypothetical protein	A3F626	Streptococcus_phage	2.6e-11	91.9
WP_000067995.1\|30345_30858_-	hypothetical protein	A0A1S5S8V7	Streptococcus_phage	7.6e-63	72.0
WP_000435056.1\|30854_31196_-	hypothetical protein	M1NS23	Streptococcus_phage	4.1e-12	38.7
WP_000163581.1\|31364_32162_-	PD-(D/E)XK nuclease-like domain-containing protein	J7KGZ1	Streptococcus_phage	2.1e-131	84.9
WP_000064171.1\|32158_33112_-	recombinase RecT	J7KDK3	Streptococcus_phage	1.1e-120	70.7
WP_001288193.1\|33112_33274_-	hypothetical protein	J7KDI4	Streptococcus_phage	4.3e-20	96.2
WP_000229414.1\|33276_33531_-	hypothetical protein	J7KK18	Streptococcus_phage	5.7e-35	83.3
WP_000431578.1\|33517_33793_-	hypothetical protein	J7KJY6	Streptococcus_phage	1.2e-41	96.7
WP_000424126.1\|33782_33929_-	hypothetical protein	J7KBQ4	Streptococcus_phage	1.5e-16	91.5
WP_000600244.1\|33919_34702_-	ATP-binding protein	A0A097PAQ0	Streptococcus_pyogenes_phage	3.1e-132	88.8
WP_000546751.1\|34688_35447_-	replication initiator protein A	A0A097PBE7	Streptococcus_pyogenes_phage	1.7e-71	64.4
WP_017644740.1\|35475_35622_-	hypothetical protein	A0A1P8VVR9	Streptococcus_phage	1.2e-05	72.7
WP_000879944.1\|35605_35836_-	hypothetical protein	NA	NA	NA	NA
WP_000263688.1\|35908_36094_-	helix-turn-helix transcriptional regulator	J7KH19	Streptococcus_phage	7.8e-26	95.1
WP_000360288.1\|36238_36574_+	hypothetical protein	J7KDN7	Streptococcus_phage	7.8e-16	69.1
WP_000884083.1\|36714_37521_+	TIGR02391 family protein	A0A1S5SBU1	Streptococcus_phage	4.2e-124	82.8
WP_000391255.1\|37455_37716_-	hypothetical protein	A0A1S5SC19	Streptococcus_phage	7.6e-27	75.0
WP_001072522.1\|37748_38465_-	phage antirepressor protein	U6E9A9	Streptococcus_phage	2.3e-118	88.6
WP_001157160.1\|38504_38711_-	helix-turn-helix domain-containing protein	A0A1X9I5S3	Streptococcus_phage	1.1e-17	63.2
WP_000074057.1\|38783_39008_+	hypothetical protein	NA	NA	NA	NA
WP_000356583.1\|38978_39239_-	hypothetical protein	NA	NA	NA	NA
WP_000460827.1\|39312_39699_+	hypothetical protein	A0A097PAT1	Streptococcus_pyogenes_phage	4.7e-65	98.4
WP_001247539.1\|39687_39897_-	hypothetical protein	A0A097PAQ9	Streptococcus_pyogenes_phage	8.2e-32	97.1
WP_000039331.1\|39951_40647_+	hypothetical protein	M1PL51	Streptococcus_phage	6.8e-30	41.6
WP_001104145.1\|40793_40952_-	hypothetical protein	J7KH24	Streptococcus_phage	2.6e-22	94.2
WP_000274022.1\|41009_41192_+	DUF1508 domain-containing protein	NA	NA	NA	NA
WP_001113676.1\|41311_41455_-	hypothetical protein	Q938N4	Temperate_phage	1.3e-15	95.2
WP_000168826.1\|41838_42588_+	helix-turn-helix domain-containing protein	A0A097PBE5	Streptococcus_pyogenes_phage	6.3e-82	65.2
WP_000891067.1\|42589_43147_+	GTP pyrophosphokinase	Q0H269	Geobacillus_phage	1.6e-18	30.2
WP_000426896.1\|43318_44212_+	P63C domain-containing protein	A0A1I9LJQ0	Stx_converting_phage	2.1e-68	47.1
WP_000264734.1\|44335_45415_+\|integrase	site-specific integrase	A0A1S5SCC5	Streptococcus_phage	4.8e-67	41.3
WP_001068667.1\|45639_45987_-	50S ribosomal protein L19	NA	NA	NA	NA
45466:45479	attR	NA	NA	NA	NA
WP_000595708.1\|46566_47763_-	voltage-gated chloride channel family protein	A0A1X9I5Z9	Streptococcus_phage	4.6e-103	54.5

Anti-CRISPR protein detection

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

5. NZ_ALUP01000009

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

12999 : 20986

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000220683.1\|12999_14454_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	1.4e-53	32.5
WP_001291337.1\|14481_15504_+	phosphoribosylformylglycinamidine cyclo-ligase	R9TMC7	Synechococcus_phage	1.2e-62	42.4
WP_000686116.1\|15671_16235_+	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	1.8e-25	35.6
WP_000183891.1\|16253_16874_+	hypothetical protein	NA	NA	NA	NA
WP_000197236.1\|16892_18443_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	E3SNU8	Prochlorococcus_phage	4.4e-45	52.4
WP_001045908.1\|18635_19535_+	peptidoglycan DD-metalloendopeptidase family protein	A0A221J6U0	Arthrobacter_phage	4.1e-19	45.9
WP_000783409.1\|19681_20986_+	LysM peptidoglycan-binding domain-containing protein	A0A0E3XB61	Gordonia_phage	9.2e-12	34.2

Anti-CRISPR protein detection

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

6. NZ_ALUP01000011

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CRISPR-Cas detection and classification

Crispr_ID: NZ_ALUP01000011_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_ALUP01000011_1

263447-264013

TypeII

II-A

Consensus_repeat	Method
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	PILER-CR
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	CRISPRCasFinder
GTTTTAGAGCTGTGNTGTTTCGAATGGTTCCAAAAC	CRT

8 spacers

csn2,cas2,cas1,cas9

The CRISPR arrays of NZ_ALUP01000011_1

>merge|NZ_ALUP01000011|1|263447-264013|PILER-CR,CRISPRCasFinder,CRT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACAAGAGATTCACGCCACCGACCGTATCGCTGGTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACCTTTATCCGTTTTACTCATTCTTTTTTTAAGTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACGATAGAATTGTTACTTTGGAAGGGGAACTTGTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACAACAACTTTCTTACAAAAGGTTCTAGTTTTCTTGTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACGCTGGAGATTTTACAAGCAGTTTGAATTTCGTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAACAATCACTTCTGCATAAATATCTTTTACTTCGTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAACAAACATCCGCAACGGGATAAATAAAGCTAGGTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAACAGTTTCTTGTGGGTTAGCTTGTCCACCATAGTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC

>NZ_ALUP01000011|1|1|263447-263947|PILER-CR
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AAGAGATTCACGCCACCGACCGTATCGCTG
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	CTTTATCCGTTTTACTCATTCTTTTTTTAA
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GATAGAATTGTTACTTTGGAAGGGGAACTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AACAACTTTCTTACAAAAGGTTCTAGTTTTCTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GCTGGAGATTTTACAAGCAGTTTGAATTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AATCACTTCTGCATAAATATCTTTTACTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AAACATCCGCAACGGGATAAATAAAGCTAG
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC

>NZ_ALUP01000011|1|1|263447-264013|CRISPRCasFinder
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AAGAGATTCACGCCACCGACCGTATCGCTG
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	CTTTATCCGTTTTACTCATTCTTTTTTTAA
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GATAGAATTGTTACTTTGGAAGGGGAACTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AACAACTTTCTTACAAAAGGTTCTAGTTTTCTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GCTGGAGATTTTACAAGCAGTTTGAATTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AATCACTTCTGCATAAATATCTTTTACTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AAACATCCGCAACGGGATAAATAAAGCTAG
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AGTTTCTTGTGGGTTAGCTTGTCCACCATA
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC

>NZ_ALUP01000011|1|1|263447-264013|CRT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AAGAGATTCACGCCACCGACCGTATCGCTG
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	CTTTATCCGTTTTACTCATTCTTTTTTTAA
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GATAGAATTGTTACTTTGGAAGGGGAACTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	AACAACTTTCTTACAAAAGGTTCTAGTTTTCTT
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC	GCTGGAGATTTTACAAGCAGTTTGAATTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AATCACTTCTGCATAAATATCTTTTACTTC
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AAACATCCGCAACGGGATAAATAAAGCTAG
GTTTTAGAGCTGTGTTGTTTCGAATGGTTCCAAAAC	AGTTTCTTGTGGGTTAGCTTGTCCACCATA
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_ALUP01000011.1\|WP_000914659.1\|253674_254805_+\|oxygen-independent-coproporphyrinogen-III-oxidase	unknown	unknown	gnl\|CDD\|236309
NZ_ALUP01000011.1\|WP_000590706.1\|262680_263346_+\|type-II-A-CRISPR-associated-protein-Csn2	csn2	pfam09711_csn2_CAS-II-A	gnl\|CDD\|213408
NZ_ALUP01000011.1\|WP_000679502.1\|264333_264477_+\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000122197.1\|262352_262694_+\|CRISPR-associated-endonuclease-Cas2	cas2	COG3512_cas2_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226043
NZ_ALUP01000011.1\|WP_000900527.1\|264065_264326_+\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_001241816.1\|253201_253582_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|131381
NZ_ALUP01000011.1\|WP_000929490.1\|261486_262356_+\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|274694
NZ_ALUP01000011.1\|WP_000665413.1\|271130_271565_+\|peptide-methionine-(R)-S-oxide-reductase-MsrB	unknown	unknown	gnl\|CDD\|234692
NZ_ALUP01000011.1\|WP_000065320.1\|274508_275612_+\|DUF2974-domain-containing-protein	unknown	unknown	gnl\|CDD\|371412
NZ_ALUP01000011.1\|WP_000168894.1\|271716_274509_+\|cation-transporting-P-type-ATPase	unknown	unknown	gnl\|CDD\|223550
NZ_ALUP01000011.1\|WP_000438313.1\|264635_265052_+\|nucleoside-diphosphate-kinase	unknown	unknown	gnl\|CDD\|179085
NZ_ALUP01000011.1\|WP_000180008.1\|269998_270658_+\|HD-domain-containing-protein	unknown	unknown	gnl\|CDD\|224336
NZ_ALUP01000011.1\|WP_001040077.1\|257351_261485_+\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	cas9	COG3513_cas9_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226044
NZ_ALUP01000011.1\|WP_000678287.1\|267265_269899_+\|pneumococcal-type-histidine-triad-protein	unknown	unknown	gnl\|CDD\|380193
NZ_ALUP01000011.1\|WP_000523795.1\|254808_255546_+\|acyl-ACP-thioesterase	unknown	unknown	gnl\|CDD\|366738
NZ_ALUP01000011.1\|WP_000323544.1\|255546_256317_+\|TIGR01457-family-HAD-type-hydrolase	unknown	unknown	gnl\|CDD\|319832
NZ_ALUP01000011.1\|WP_001019133.1\|265187_267020_+\|elongation-factor-4	unknown	unknown	gnl\|CDD\|235462
NZ_ALUP01000011.1\|WP_000621139.1\|270666_271131_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|366181
NZ_ALUP01000011.1\|WP_000653357.1\|256306_256963_+\|TIGR01906-family-membrane-protein	unknown	unknown	gnl\|CDD\|226884
NZ_ALUP01000011.1\|WP_000159235.1\|252805_253177_+\|YbgA-family-protein	unknown	unknown	gnl\|CDD\|377982

Protein	Function_ID	Function_description	E-value
NZ_ALUP01000011.1\|WP_000914659.1\|253674_254805_+\|oxygen-independent-coproporphyrinogen-III-oxidase	gnl\|CDD\|236309	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase.	0
NZ_ALUP01000011.1\|WP_000590706.1\|262680_263346_+\|type-II-A-CRISPR-associated-protein-Csn2	gnl\|CDD\|213408	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2. Csn2 is a Nmeni subtype-specific Cas protein, which may function in the adaptation process which mediates the incorporation of foreign nucleic acids into the microbial host genome. Csn 2 may interact directly with double-stranded DNA. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Csn2 has been predicted to be a functional analog of Cas4 based on anti-correlated phyletic patterns; also known as SPy1049 family.	3.61399e-122
NZ_ALUP01000011.1\|WP_000122197.1\|262352_262694_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|226043	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms].	1.70123e-50
NZ_ALUP01000011.1\|WP_000665413.1\|271130_271565_+\|peptide-methionine-(R)-S-oxide-reductase-MsrB	gnl\|CDD\|234692	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB.	3.05659e-84
NZ_ALUP01000011.1\|WP_001241816.1\|253201_253582_+\|hypothetical-protein	gnl\|CDD\|131381	TIGR02328, TIGR02328, conserved hypothetical protein. Members of this protein are found in a small number of taxonomically well separated species, yet are strongly conserved, suggesting lateral gene transfer. Members are found in Treponema denticola, Clostridium acetobutylicum, and several of the Firmicutes. The function of this protein is unknown. [Hypothetical proteins, Conserved].	6.45558e-80
NZ_ALUP01000011.1\|WP_000929490.1\|261486_262356_+\|type-II-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274694	TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype II/NMENI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 variant of the NMENI subtype of CRISPR/Cas system.	5.3759e-138
NZ_ALUP01000011.1\|WP_000065320.1\|274508_275612_+\|DUF2974-domain-containing-protein	gnl\|CDD\|371412	pfam11187, DUF2974, Protein of unknown function (DUF2974). This bacterial family of proteins has no known function.	1.44123e-105
NZ_ALUP01000011.1\|WP_000168894.1\|271716_274509_+\|cation-transporting-P-type-ATPase	gnl\|CDD\|223550	COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and metabolism].	0
NZ_ALUP01000011.1\|WP_000438313.1\|264635_265052_+\|nucleoside-diphosphate-kinase	gnl\|CDD\|179085	PRK00668, ndk, mulitfunctional nucleoside diphosphate kinase/apyrimidinic endonuclease/3'-; Validated.	6.25805e-79
NZ_ALUP01000011.1\|WP_000180008.1\|269998_270658_+\|HD-domain-containing-protein	gnl\|CDD\|224336	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only].	1.30028e-33
NZ_ALUP01000011.1\|WP_001040077.1\|257351_261485_+\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	gnl\|CDD\|226044	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms].	0
NZ_ALUP01000011.1\|WP_000678287.1\|267265_269899_+\|pneumococcal-type-histidine-triad-protein	gnl\|CDD\|380193	NF033189, internalin_A, class 1 internalin InlA. Internalins, as found in the intracellular human pathogen Listeria monocytogenes, are paralogous surface or secreted proteins with an N-terminal signal peptide, leucine-rich repeats, and usually a C-terminal LPXTG processing and cell surface anchoring site. See PMID:17764999 for a general discussion of internalins. Members of this family are internalin A (InlA), a class 1 (LPXTG-type) internalin.	8.24068e-22
NZ_ALUP01000011.1\|WP_000523795.1\|254808_255546_+\|acyl-ACP-thioesterase	gnl\|CDD\|366738	pfam01643, Acyl-ACP_TE, Acyl-ACP thioesterase. This family consists of various acyl-acyl carrier protein (ACP) thioesterases (TE) these terminate fatty acyl group extension via hydrolysing an acyl group on a fatty acid.	3.68196e-111
NZ_ALUP01000011.1\|WP_000323544.1\|255546_256317_+\|TIGR01457-family-HAD-type-hydrolase	gnl\|CDD\|319832	cd07530, HAD_Pase_UmpH-like, UmpH/NagD family phosphatase, similar to Escherichia coli UmpH UMP phosphatase/NagD nucleotide phosphatase and Mycobacterium tuberculosis Rv1692 glycerol 3-phosphate phosphatase. Escherichia coli UmpH/NagD is a ribonucleoside tri-, di-, and monophosphatase with a preference for purines, it shows peak activity with UMP and functions in UMP-degradation. It is also an effective phosphatase with AMP, GMP and CMP. Mycobacterium tuberculosis phosphatase, Rv1692 is a glycerol 3-phosphate phosphatase. Rv1692 is the final enzyme involved in glycerophospholipid recycling/catabolism. This subfamily belongs to the UmpH/NagD phosphatase family, and to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	1.19143e-132
NZ_ALUP01000011.1\|WP_001019133.1\|265187_267020_+\|elongation-factor-4	gnl\|CDD\|235462	PRK05433, PRK05433, GTP-binding protein LepA; Provisional.	0
NZ_ALUP01000011.1\|WP_000621139.1\|270666_271131_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	4.90455e-18
NZ_ALUP01000011.1\|WP_000653357.1\|256306_256963_+\|TIGR01906-family-membrane-protein	gnl\|CDD\|226884	COG4478, COG4478, Predicted membrane protein [Function unknown].	9.75792e-52
NZ_ALUP01000011.1\|WP_000159235.1\|252805_253177_+\|YbgA-family-protein	gnl\|CDD\|377982	pfam08349, DUF1722, Protein of unknown function (DUF1722). This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from E. coli.	7.7979e-28

>NZ_ALUP01000011.1|WP_000590706.1|262680_263346_+|type-II-A-CRISPR-associated-protein-Csn2
MIKINFPILDEPLVLSNATILTIEDVSVYSSLVKHFYQYDVDEHLKLFDDKQKSLKATELMLVTDILGYDVNSAPILKLIHGDLENQFNEKPEVKSMVEKLAATITELIAFECLENELDLEYDEITILELIKALGVKIETQSDTIFEKCFEIIQVYHYLTKKNLLVFVNSGAYLTKDEVIKLCEYINLMQKSVLFLEPRRLYDLPQYVIDKDYFLIGENMV
>NZ_ALUP01000011.1|WP_000122197.1|262352_262694_+|CRISPR-associated-endonuclease-Cas2
MSYRYMRMILMFDMPTETVEERKAYRKFRKFLLSEGFIMHQFSVYSKLLLNNTANNAMIGRLKVNNPKKGSITLLTVTEKQFARMVYLHGEHNMSVANSDSRLVFLGDSYDQD
>NZ_ALUP01000011.1|WP_000929490.1|261486_262356_+|type-II-CRISPR-associated-endonuclease-Cas1
MAGWRTVVVNTHSKLSYKNNHLIFKDSYQTEMIHLSEIDILIMETTDIVLSTMLIKRLVDENILVIFCDDKRLPTAMLMPYYARHDSSLQLSRQMSWIEDVKADVWTSIIAQKILNQSFYLGECSFFEKSQSIMNLYHDLESFDPSNREGHAARIYFNTLFGNDFSREQDNPINAGLDYGYSLILSMFAREVVKCGCMTQFGLKHANQFNQFNLASDIMEPFRPIVDRIIYENRQSDFVKMKRELFSMFSETYSYNGKEMYLSNIVSDYTKKVIKSLNSDGNGIPEFRI
>NZ_ALUP01000011.1|WP_001040077.1|257351_261485_+|type-II-CRISPR-RNA-guided-endonuclease-Cas9
MNKPYSIGLDIGTNSVGWSIITDDYKVPAKKMRVLGNTDKEYIKKNLIGALLFDGGNTAADRRFKRTARRRYTRRRNRILYLQEIFAEEMSKVDDSFFHRLEDSFLVEEDKRGSKYPIFATMQEEKYYHEKFPTIYHLRKELADKKEKADLRLVYLALAHIIKFRGHFLIEDDRFDVRNTDIQKQYQAFLEIFDTTFENNHLLSQNVDVEAILTDKISKSAKKDRILAQYPNQKSTGIFAEFLKLIVGNQADFKKHFNLEDKTPLQFAKDSYDEDLENLLGQIGDEFADLFSVAKKLYDSVLLSGILTVTDLSTKAPLSASMIQRYDEHHEDLKHLKQFVKASLPENYREVFADSSKDGYAGYIEGKTNQEAFYKYLLKLLTKQEGSEYFLEKIKNEDFLRKQRTFDNGSIPHQVHLTELRAIIRRQSEYYPFLKENQDRIEKILTFRIPYYVGPLAREKSDFAWMTRKTDDSIRPWNFEDLVDKEKSAEAFIHRMTNNDLYLPEEKVLPKHSLIYEKFTVYNELTKVRFLAEGFKDFQFLNRKQKETIFNSLFKEKRKVTEKDIISFLNKVDGYEGIAIKGIEKQFNASLSTYHDLKKILGKDFLDNTDNELILEDIVQTLTLFEDREMIKKCLDIYKDFFTESQLKKLYRRHYTGWGRLSAKLINGIRNKENQKTILDYLIDDGSANRNFMQLINDDDLSFKPIIDKARTGSHSDNLKEVVGELAGSPAIKKGILQSLKIVDELVKVMGYEPEQIVVEMARENQTTAKGLSRSRQRLTTLRESLANLKSNILEEKKPKYVKDQVENHHLSDDRLFLYYLQNGRDMYTKKALDIDNLSQYDIDHIIPQAFIKDDSIDNRVLVSSAKNRGKSDDVPSIEIVKARKMFWKNLLDAKLMSQRKYDNLTKAERGGLTSDDKARFIQRQLVETRQITKHVARILDERFNNEVDNGKKICKVKIVTLKSNLVSNFRKEFGFYKIREVNDYHHAHDAYLNAVVAKAILTKYPQLEPEFVYGMYRQKKLSKIVHEDKEEKYSEATRKMFFYSNLMNMFKRVVRLADGSIVVRPVIETGRYMGKTAWDKKKHFATVRKVLSYPQNNIVKKTEIQTGGFSKESILAHGNSDKLIPRKTKDIYLDPKKYGGFDSPIVAYSVLVVADIKKGKAQKLKTVTELLGITIMERSRFEKNPSAFLESKGYLNIRDDKLMILPKYSLFELENGRRRLLASAGELQKGNELALPTQFMKFLYLASRYNESKGKPEEIEKKQEFVNQHVSYFDDILQLINDFSKRVILADANLEKINKLYQDNKENIPVDELANNIINLFTFTSLGAPAAFKFFDKIVDRKRYTSTKEVLNSTLIHQSITGLYETRIDLGKLGED
>NZ_ALUP01000011.1|WP_000653357.1|256306_256963_+|TIGR01906-family-membrane-protein
MKDKLLVVLTWIWIISLATLATIYIAWLIYPIEIQFLKLEKVVYLKAETIYYNFNKLMIYLTHPFISDLNMPSFPSSEDGLKHFADVKYLFTLAHGLFVILTFPVIYFLRRGWKQKSIFLYEGFFKIAIMLPIFIVVCAFLLGFDQFFTLFHEVLFPGDSTWQFNPLTDPVIWILPETFFLHCFIIFLLIYETITIILLIIGRKHLKLRKYKNKMQAL
>NZ_ALUP01000011.1|WP_000323544.1|255546_256317_+|TIGR01457-family-HAD-type-hydrolase
MAYKGYLIDLDGTIYKGKSRIPAGERFIERLQEKGIPYMLVTNNTTRTPESVQEMLRGFNVETPLETIYTATMATVDYMNDMNRGKTAYVIGEEGLKKAIADAGYVEDTKNPAYVVVGLDWNVTYDKLATATLAIQNGALFIGTNPDLNIPTERGLLPGAGSLNALLEAATRIKPVFIGKPNAIIMNKALEILNIPRNQAVMVGDNYLTDIMAGINNDIDTLLVTTGFTTVEEVPDLPIQPSYVLASLDEWTFNEG
>NZ_ALUP01000011.1|WP_000523795.1|254808_255546_+|acyl-ACP-thioesterase
MGLLYRETYEVPFYESDTNHYMKLPQLLALALQISAKQSLKLGIGDDIVFKRYGLVWVVTDYIIDIERLPKHAEKIVIETEAKAHNKLLCYRYFYIYGEDGQKIITISSAFVLMDFKTRKIHPVLDDITSIYQSQRIKKVIRGPKYHPIGDSKVKQYHVRYFDLDMNGHVNNSKYLEWMYDVLDLDFLSSHIPKKIDLKYIKEIQYGTDIKSHWYQDGLVTRHDIIGGDAIHAQARIEWQEKKED
>NZ_ALUP01000011.1|WP_000914659.1|253674_254805_+|oxygen-independent-coproporphyrinogen-III-oxidase
MLKKPTSAYVHIPFCTQICYYCDFSKVFIKNQPVDAYLQALIREFRSYDITELRTLYIGGGTPTSISAVQLDYLLTELIRDLNLNTLEEFTIEANPGDLTVDKIEVLQKSAVNRVSLGVQTFNDKHLKRIGRSHNEAQIYSTIDALKTAGFQNISIDLIYALPGQTMDDVRSNVAKALSLNIPHLSLYSLILEHHTVFMNKMRRGKLHLPTEDLEAEMFEYIISEMERNGFEHYEISNFTKPGFESRHNLMYWENVEYYGVGAGASGYLDGIRYRNRGPIQHYLKGVSEGNARLSEEVLSKNEMMEEELFLGLRKKEGVSIGKFEQKFGTSFEKRYGQIVQELQSDGLLKENNGFIQMTKKGLFLGDTVAEKFIVE
>NZ_ALUP01000011.1|WP_001241816.1|253201_253582_+|hypothetical-protein
MRLWHQDIIELLPRQQLLGQHRECCALRGNGWGRKHETVDYVFRYSPYRLFAYHQLVMEEMMERGYRVSKEWLIAEYRGMKCPRYDTLNPVDLETPIYPEHNQDYLQECLWNLKAKGIDLPINKIK
>NZ_ALUP01000011.1|WP_000159235.1|252805_253177_+|YbgA-family-protein
MTKEAKLLWAKHKYLVLSKSQKIYLDIRQTLKSPNCTVLDVQSLIDQAVLLEESPSQVTNAYMHIWGYFKNKAERQEKEEFLTLLEKYRKTGYQRRKLLAFLKQLLAKYPNSYLQNSSIFEEE
>NZ_ALUP01000011.1|WP_000900527.1|264065_264326_+|hypothetical-protein
MLGHHCGVLVFCYTEINFQRMWGKAVIRLIQDVIQNLVGQANEITPIYQFDWETYILATKKYERHLEVCLLVENSNCFSDSKRMCR
>NZ_ALUP01000011.1|WP_000679502.1|264333_264477_+|hypothetical-protein
MKGYNSNLMVKGQDCSTLYLIISLTALVLLVIAGVSLSLILASLQGK
>NZ_ALUP01000011.1|WP_000438313.1|264635_265052_+|nucleoside-diphosphate-kinase
MEQTFFMIKPDGVKRGFIGEVISRIERRGFSIDRLEVRHADADILKRHYAELTDRPFFPTLVDYMTSGPVIIGVISGEEVISTWRTMMGSTNPKDALPGTIRGDFAQAPSPNQATCNIVHGSDSPESATREIAIWFNN
>NZ_ALUP01000011.1|WP_001019133.1|265187_267020_+|elongation-factor-4
MNIEDLKKRQEKIRNFSIIAHIDHGKSTLADRILEKTETVSSREMQAQLLDSMDLERERGITIKLNAIELNYTAKDGETYIFHLIDTPGHVDFTYEVSRSLAACEGAILVVDAAQGIEAQTLANVYLALDNDLEILPVINKIDLPAADPERVRAEVEDVIGLDASEAVLASAKAGIGIEEILEQIVEKVPAPTGEVDAPLQALIFDSVYDAYRGVILQVRIVNGMVKPGDKIQMMSNGKTFDVTEVGIFTPKAVGRDFLATGDVGYIAASIKTVADTRVGDTITLANNPAIEPLHGYKQMNPMVFAGLYPIESNKYNDLREALEKLQLNDASLQFEPETSQALGFGFRCGFLGLLHMDVIQERLEREFNIDLIMTAPSVVYHVNTTDGEMLEVSNPSEFPDPTRVDSIEEPYVKAQIMVPQEFVGAVMELAQRKRGDFVTMDYIDDNRVNVIYQIPLAEIVFDFFDKLKSSTRGYASFDYEISEYRRSQLVKMDILLNGDKVDALSFIVHKEFAYERGKLIVDKLKKIIPRQQFEVPIQAAIGQKIVARSDIKALRKNVLAKCYGGDVSRKRKLLEKQKAGKKRMKAIGSVEVPQEAFLSVLSMDDDDKK
>NZ_ALUP01000011.1|WP_000678287.1|267265_269899_+|pneumococcal-type-histidine-triad-protein
MKGQKIIALAGLVLSCHFALTACHTQEHKNSHHIKTKQVAKKKANKKKVSVKESHKKRKGVAGVDFPTDDGFLLTKDSKILSHTDSGIVVAHGNHSHFIFYSDLKGSKFSYLIPNANAKTNKKQAVRNFKAGAVAVNTLNDGYVFNPADIVSEDANGYVVRHGDHFHYIPKASLSQQKQVQASRAVSRLGNQNNSHYRVNSSKIAGLHHPTSDGFLFNGQGIKGTTPTGILVEHHNHLHFISFADLRKGGWGSIADRYQPQKKVDSKKQSPSSKKPRTENTLPKDIKDKLAYLARELHLDISRIRVLKTLNGEIGFEYPHDDHTHVIMAKDIDLSKPIPNPHHDDEDHHKGHHHDESDHKHEEHEHTKSNKLSDEDQKKLIYLAEKLGLNPNQIEVLTSEDGSIIFKYPHDDHSHTIASKDIEIGKPIPDGHHDHSHAKDKVGMATLKQIGFDDEIIQDILHADAPTPFPSNETNPEKMRQWLATVTKINIGQRTNPFQRFGLSLMPNIEVLGIGFTPINDMTPVLQFKKLKQLWMTNTGITDYSFLDKMPLLEGLDISQNGIKDLSFLTKYKQLSLIAAANNGITSLKPLAELPNLQFLVLSHNNISDLTPLSNLTKLQELHLDHNNVKNLSALSGKKDLKVLDLSNNKSADLSTLKTTSLETLLLNETNTSNLSFLKQNPKVSNLTINNAKLASLDGIEESDEIVKVEAEGNQIKSLVLKNKQGSLKFLNVTNNQLTSLEGVNNYTSLETLSVSKNKLESLDIKTPNKTVTNLDFSHNNVPTSQLKLNEKNIPEAVAKNFPAVVEGSMVGNGSLAEKAAMASKEDKQVSDNTNHQKNTEKSAQANADSKKENPKTHDEHHDHEETDHAHVGHHHH
>NZ_ALUP01000011.1|WP_000180008.1|269998_270658_+|HD-domain-containing-protein
MTMVKREDVILNATENMVYHKLKNDPSGHDWFHIVRVRNLAVELAHKEGANTFICQMAALLHDIIDDKICQDSKQASYELTQWLYSQDLAIAEVEHILDILENISFKAGTGLTMKTLEGQIVQDADRLDAMGAIGIARTMAYSGSKGRLIHDPNLKPRENLTLEEYRNGQDTAIMHFYEKLLKLKDLMNTKQGKMLAQKRHDFLELYLAEFYAEWNGKG
>NZ_ALUP01000011.1|WP_000621139.1|270666_271131_+|GNAT-family-N-acetyltransferase
MIRRAKEKDLPAIAELLKQILVLHHGVRPDIFHTRGSKFSKEQLKEMLMDESRPIFVYESDEGKVVAHLFLQLQEKRDLPRKSFKTLYIDDLCIDEEVRGQQIGQKLMDFARQYAKKHGCYNITLNVWNDNQRAVSFYEKLGFKPQQTQMEEIL
>NZ_ALUP01000011.1|WP_000665413.1|271130_271565_+|peptide-methionine-(R)-S-oxide-reductase-MsrB
MKETQEELRQRIGHTAYQVTQNSATEHAFTGKYDDFFEEGIYVDIVSGEVLFSSLDKFQSGCGWPAFSKQIENRMVTNHQDHSHGMHRIEVRSRQADSHLGHVFNDGPVDAGGLRYCINSAALDFIPYDQMAKRGYGDYLSLFD
>NZ_ALUP01000011.1|WP_000168894.1|271716_274509_+|cation-transporting-P-type-ATPase
MASTNNVSDTNTCFAKEELEEIFEELGTTQGGLSDEEVAVRQKKYGLNLLSEVEQESIILLFLKNFTSLMAILLWVGGFVAIVSNSLELGLAIWMVNVINGIFSFIQEYRASQATQALKKMLPSYSRVLRKSSEEKILSEQLVPGDIVLIEEGDRISADGRLIKTTDLQVNQSALTGESNPIYKDSNVENDQSKTLIECDNMVFAGTTVSSGSATMVVTAIGMQTQFGQIADLTQGMKSEKSPLQRELDRLTKQISIISITVGIIFFLAATFFVKEPVSKSFIFALGMIVAFIPEGLLPTVTLSLAMAVQRMAKEHALVKKLSSVETLGATSVICSDKTGTLTQNEMTVNHLWQNGKSYQVTGLGYAPEGQILFEGDNICFGNSDRGDLEKLIRFAHLCSNAQVLPPNDERSTYTVLGDPTEACLNVLLEKSGINRQENRKFAPRLKELPFDSVRKRMTTIHSLGGDEKDKKISITKGAPKEILDLSDYVLSDGKVIPLNKEERNKIQLANDTFAKDGLRVLAVSYCDIEGFSKEQWTQENLEQHMVFIGLIAMSDPPREGVREAIDKCHAASIRIIMVTGDYGLTALSIAKNIGIIRNDGAKVISGLELSEMTDSQLKKELSGEAVFARVAPEQKYRVVTILQEMGEVVAVTGDGVNDAPALKKSDIGVAMGVTGTDVAKESADMILTDDHFASIVHAVEEGRAVYQNIKKFLTYIFNSNTPEAVPSAFFLFSKGFIPLPLTVMQILAVDLGTDMLPALGLGVEPPETDVMNRPPRRLTDRLLDKGLLIKSFLWYGTIESVLAMGGFFWAHYLRYGNFTFFVANGIPYREATTMTLGAIIFSQIGMVMNSRTSYQSIKTLSIFGNKLINFGIIMEILAFLVLVYVPLFHNLFNTASLGLSHWLYLIGCPFIMIGLDEVRKLFSSRKNKR
>NZ_ALUP01000011.1|WP_000065320.1|274508_275612_+|DUF2974-domain-containing-protein
MSNIITYLKNNSNLTFDELALNDVDILCLNEFGYISFEKLINTTEMKSVLVCELYHEYLQTMAKSYSFMFTSQRHDLCQLMMTSKRFKNLTLSYYRAEISLEFEKQFAAMVFTIPNINYHQVVFRGTDANLIGWKEDFKLTYMREISAHRSAIKYLNTILPYFDKVVLSGHSKGGNLALYAAMFTKPDLKAKIDLIWLIDSPGLQKTLLPTTEYKTTKQKCIRLLPEESIVGMMLYSDIEPLIISSNARGILQHDVTTWEIQEPAILKTGTGLSLKSICFEKTFQQWMAELKSQERKLFFDLLFDSFLSSGVSSLDDFNLASRAKMMKAFHSFRELDDDKKRLFNKSLKLLVTIFLGAYHDNSRETK

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Crispr_ID: NZ_ALUP01000011_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_ALUP01000011_2

477075-477150

Orphan

Consensus_repeat	Method
AGCAACTGATACTTGTTTAACATCA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_ALUP01000011_2

>merge|NZ_ALUP01000011|2|477075-477150|CRISPRCasFinder
AGCAACTGATACTTGTTTAACATCACCAGTACTTGGCAACACGCTTGCTTTAGCAACTGATACTTGTTTAACATCA

>NZ_ALUP01000011|2|2|477075-477150|CRISPRCasFinder
AGCAACTGATACTTGTTTAACATCA	CCAGTACTTGGCAACACGCTTGCTTT
AGCAACTGATACTTGTTTAACATCA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_ALUP01000011.1\|WP_000447421.1\|481611_482055_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000822468.1\|480313_481339_-\|replication-initiator-protein-A	unknown	unknown	gnl\|CDD\|369151
NZ_ALUP01000011.1\|WP_000129105.1\|479250_479550_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000651825.1\|471518_472271_-\|membrane-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_001282475.1\|482761_483133_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000481327.1\|483246_484230_-\|GMP-reductase	unknown	unknown	gnl\|CDD\|235479
NZ_ALUP01000011.1\|WP_000040950.1\|471007_471505_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_001042360.1\|476277_476988_-\|LPXTG-cell-wall-anchor-domain-containing-protein	unknown	unknown	gnl\|CDD\|223021
NZ_ALUP01000011.1\|WP_000938679.1\|480126_480312_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000004254.1\|472319_472805_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000609828.1\|470017_470476_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_001088029.1\|473412_476211_-\|LPXTG-cell-wall-anchor-domain-containing-protein	unknown	unknown	gnl\|CDD\|375647
NZ_ALUP01000011.1\|WP_000362731.1\|470536_470764_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_000208122.1\|479932_480130_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NZ_ALUP01000011.1\|WP_000447008.1\|472910_473138_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALUP01000011.1\|WP_001037292.1\|469596_469956_-\|PrgI-family-protein	unknown	unknown	gnl\|CDD\|378907
NZ_ALUP01000011.1\|WP_000162146.1\|484432_485773_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|341046
NZ_ALUP01000011.1\|WP_000191926.1\|482320_482578_-\|DUF3850-domain-containing-protein	unknown	unknown	gnl\|CDD\|372409
NZ_ALUP01000011.1\|WP_000176428.1\|467264_469616_-\|DUF87-domain-containing-protein	unknown	unknown	gnl\|CDD\|274279
NZ_ALUP01000011.1\|WP_000166480.1\|481340_481505_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NZ_ALUP01000011.1\|WP_001088029.1\|473412_476211_-\|LPXTG-cell-wall-anchor-domain-containing-protein	gnl\|CDD\|375647	pfam18220, BspA_v, Adhesin BspA variable domain. This domain is found in BspA protein present in Streptococcus agalactiae. BspA is an antigen I/II family polypeptide that confers adhesion linked to pathogenesis in group B Streptococcus. This domain is referred to as the variable domain (BspA-V). BspA-V is responsible for binding to scavenger receptor gp340. BspA-V adopts a fold that is distinct from those of other AgI/II family polypeptide variable domains.	3.68869e-86
NZ_ALUP01000011.1\|WP_000208122.1\|479932_480130_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	1.56498e-16
NZ_ALUP01000011.1\|WP_000822468.1\|480313_481339_-\|replication-initiator-protein-A	gnl\|CDD\|369151	pfam06970, RepA_N, Replication initiator protein A (RepA) N-terminus. This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.	2.54502e-32
NZ_ALUP01000011.1\|WP_001037292.1\|469596_469956_-\|PrgI-family-protein	gnl\|CDD\|378907	pfam12666, PrgI, PrgI family protein. This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 116 and 146 amino acids in length. This protein is found in an operon that is part of a Type IV secretion system.	0.00186887
NZ_ALUP01000011.1\|WP_001042360.1\|476277_476988_-\|LPXTG-cell-wall-anchor-domain-containing-protein	gnl\|CDD\|223021	PHA03247, PHA03247, large tegument protein UL36; Provisional.	1.72846e-05
NZ_ALUP01000011.1\|WP_000191926.1\|482320_482578_-\|DUF3850-domain-containing-protein	gnl\|CDD\|372409	pfam12961, DUF3850, Domain of Unknown Function with PDB structure (DUF3850). The search results from NCBI sequence alignment indicates a conserved domain belonging to ASCH superfamily. Dali searching results show that the protein is a structurally similar to the PUA domain, suggesting it may be involved in RNA recognition. It has been reported that the deletion of PUA genes results in impaired growth (RluD) and competitive disadvantage (TruB) in Escherichia coli. Suggestions have been put forward that, apart from their usual catalytic role, certain PUS enzymes (e.g. TruB) may also act as chaperones for RNA folding. The interface interaction indicates that the biomolecule of protein NP_809782.1 should be a dimer.	1.25228e-26
NZ_ALUP01000011.1\|WP_000176428.1\|467264_469616_-\|DUF87-domain-containing-protein	gnl\|CDD\|274279	TIGR02746, hypothetical_protein, type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.	9.6429e-17
NZ_ALUP01000011.1\|WP_000162146.1\|484432_485773_-\|MFS-transporter	gnl\|CDD\|341046	cd17503, MFS_LmrB_MDR_like, Bacillus subtilis lincomycin resistance protein (LmrB) and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This subfamily is composed of multidrug resistance (MDR) transporters including Bacillus subtilis lincomycin resistance protein LmrB, and several proteins from Escherichia coli such as the putative MDR transporters EmrB, MdtD, and YieQ. MDR transporters are drug/H+ antiporters (DHA) that mediate the efflux of a variety of drugs and toxic compounds, and confer resistance to these compounds. For example, MMR confers resistance to the epoxide antibiotic methylenomycin. This subfamily belongs to the Methylenomycin A resistance protein (also called MMR peptide) and similar multidrug resistance (MDR) transporters (MMR-like MDR transporter) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	8.42202e-59
NZ_ALUP01000011.1\|WP_000481327.1\|483246_484230_-\|GMP-reductase	gnl\|CDD\|235479	PRK05458, PRK05458, guanosine 5'-monophosphate oxidoreductase; Provisional.	0

>NZ_ALUP01000011.1|WP_001042360.1|476277_476988_-|LPXTG-cell-wall-anchor-domain-containing-protein
MNKRKLLTVLSIASVAVLSSVTFADEITPSDPTAPSTPLITPTPVDPGTPTDTTKPSTPVDPGTPTDTTKPSTPVDPGTPTDTTKPSTPVDSGTSTNPSDSEATNTNLGTKPTDVVKPETPKIPEVPSTVTPDVIDKVDKETGNITIKPIQISPDKTIIGTQNGNVIIRDSSGSHLVSASEVGGRLNEDGTVTIKDSSGKTKTLPRTGEAKGFLSIIGATILSFVAYLFKQRVTLN
>NZ_ALUP01000011.1|WP_001088029.1|473412_476211_-|LPXTG-cell-wall-anchor-domain-containing-protein
MNSQETKGHGFFRKSKAYGLVCGIALAGAFTLATSQVSADQVTTQATTQTVTQNQAETVTSTQLDKAVDTAKKAAVAVTTTTAVNHATTTDAQADLANQTQAVKDVTAKAQANTQAIKDATAENAKIDAENKAEAERVAKANKAGQAEVDARNKAGQAAVDARNKAKQQAQDDQKAKIDAENKAESQRVSQLNAQNKAKIDAENKDAQAKADATNAQLQKDYQTKLANIKSVEAYNAGVRQRNKDAQAKADATNAQLQKDYQAKLALYNQALKAKAEADKQSINNVAFDIKAQAKGVDNAEYGNSIMTAKTKPDGSFEFNHDMIDGVKTIGYGKLTGKVNHHYVANKDGSVTAFVDSVTLYKYEYRNVAQNAAVNQNIVFRVLTKDGRPIFEKAHNGNKTFAETLNKTLQLNLKYELKPHASSGNVEVFKIHDDWVHDTHGSALVSYVNNNDAVPNVVIPEQPTPPKPEKVTPEAEKPVPEKPVEPKLVTPVLKTYTPVKFIPREYKPVPSTPETFTPEKFTPAQPKVKPHVSVPEKINYKVAVHPVQIPKATPTKKVLDENGQSINGKSVLPNATLDYVAKQNFSQYKGIKASAEAIAKGFAFVDQPNEALAELTVKSIKASNGDDVSSLLEMRHVLSKDTLDQKLQSLIKEAGISPVGEFYMWTAKDPQAFYKAYVQKGLDITYNLSFKVKKEFTKGQIKNGVAQIDFGNGYTGNIVVNDLTTPEVHKDVLDKEDGKSINNGTVKLGDEVTYKLEGWVVLANRGYDLFEYKFVDHLQHTHDLYLKDKVVAKVAITLKDGTVIPKGTNLVQYTETVYNKETGRYELAFKADFLAQVSRSSAFGADDFIVVKRIKAGDVYNTADFFVNGNKVKTETVVTHTPEKPKPVMPQKVTPKAPALPSTGEQGVSVLTVLGAALLSLLGLVGFKKRQQ
>NZ_ALUP01000011.1|WP_000447008.1|472910_473138_-|hypothetical-protein
METAVRVVTAMGAILAIVGLGWVLTGAFDYFAGRKNGSPQMMDQGFTSMISGGALAVIAAGVAAAIVAAMRAISF
>NZ_ALUP01000011.1|WP_000004254.1|472319_472805_-|hypothetical-protein
MSESFDYVAFARDFEKRHGRPPTAEELEKANVEGYKDKSSFGERLKTGLSFVIRNFFRALLILIQTPVYLTLFFFNLIKSAFAVVIMCIITKAVFGVIIAEIFDSQNIDNLSQAPKLLGFFAQDFMTNNLEPIYFTEIDIIICIIFSVFLALVMTFSKSEV
>NZ_ALUP01000011.1|WP_000651825.1|471518_472271_-|membrane-protein
MKDILSELTKGLGSYNSSVNNSMTAVNKSLMAIGYILVSILFLLELLSWYRFIRNQGGEMTWKLFLEVAVKYFIAYFLVSQSGAILNAILWFTNTVTKLIGVDLSGSNLFEFKALKKGAYGIRTGLNFLAYLIGATAIVSIKVMVLLRFIELYFYKAIAPVIVAFWMGDDTRHIAKNFLKTFGAIALQSAVIIILLAIWQGFKVDTAMQLDKNSWLGTYAPAISYIGKCIIFLILLFGSQRKAKQLLQVS
>NZ_ALUP01000011.1|WP_000040950.1|471007_471505_-|hypothetical-protein
MSKLQQLIEKDFLRLTLENSPLHRSQTDCDYSDTCDRDVEQVYERLKGLIVLLLLKNQLKLSDMSRENRINCLETSGYFGIAAHRYASDSGDIAYLTEVLSIMYEDAAYGAMNGIINKNEFHALICQWLNYFDYDKIEFKGDKNFERYFQEQKEKHGELFEAFGL
>NZ_ALUP01000011.1|WP_000362731.1|470536_470764_-|hypothetical-protein
MDLEQLKQRRDELTRDNEWMDGLIKEKEEELWELKVRSIAASELARSAMQSAMRTAGIVDSFYGPSAQSSDNQTN
>NZ_ALUP01000011.1|WP_000609828.1|470017_470476_-|hypothetical-protein
MINQGQEYQYFKDKISHLEREVSRLSSYEYEHRLLKDVIADCLLQGQLTVSELPQAIRLIQGDDLFYTYAWRFVEATGDCQAGITILKILQDDLNYFFAIGKLSQKQYSQWLEKWLSFLERGRIAFKGEKDFERYFQDQTEANRSLFSDFNL
>NZ_ALUP01000011.1|WP_001037292.1|469596_469956_-|PrgI-family-protein
MNKLGSEFFKAIDQFERGIIGSFTWRQILMFFGIVLGVGLATVISLLQLPSILFYLSLVLTVPPAFIYGIKKDEHIKEVITFRLKVQERAYQTEYESEENYGAFIPQKGIQEWNDPNEN
>NZ_ALUP01000011.1|WP_000176428.1|467264_469616_-|DUF87-domain-containing-protein
MTLTKTEKERAKQLQRALKASTQNTIQYTSLFEDGLMHIVDESYSKTWQLGDTNYITGSEDEKLDIIEYYVDALNGLDSENTYQLTILNRPVPTTLLDQITYDLEGDERDVFRKEYNNIIRSRFAKDQNNFKVEKFVTVSTRAKDRKQAYRKLNDVDTHFTTQFQLVDVLLKSLDGTERLNIFADLLRGNPYLDVDYKDVRISGLSTKSFIAPGRLWFQPDQFMMDKKYCKILFPRTFPAFLNDRLIKSLTDIGIELAISIHAQPYDVAEAVKKVNTAEAGVKMDMVKSQVSAAQKGISSNLAVSSVAQDTADEAEKWKTEINDNDQKMFSGVFLVMVKADSAEELADYTSRIKQAGRKHVIEFEETYYHQEEALNSMLPIGKTYIDVKRRFMRDMTTTNIATQIPFTNTDLQSQSPLANYYGQNQISNNIISLDRQRDLYTSSGVILGSSGSGKSVFVKINEVIPAILRFPNDRVIIVDPEEEYVDIGHAFGAQVIDIYPGTKTHFNLMDIPDLNKLRDEDKDFVGQKASLIMGLFENILQEVTDDDVSLIDRVTHLCYEQITDRTPTLKDWHDILLEQPEEEAQSLALKSESYTKGSQDIFAYETNVDLNNQVVIFNLKKLSGKLKPFAMMVIQDYIWQHVVDHKDEFVTRVYFDEMQNQFETDDQAAFFSKMYARIRKYGSIPTGITQNVETLLSRKEGRNLLYNSEFLVLLKQKKTTIPYLLKTINLTDALVRYIEKPKAIGTGLIIAGTTTVPFENPIPEDTELFRLVATDAYRKMES
>NZ_ALUP01000011.1|WP_000129105.1|479250_479550_-|hypothetical-protein
MTDETKKVYLRDLRNLGKQGGATARLEDGTELFLKPDYAVRTAKGYVDGIPRDVEFHLTYRSIFNQIRTIKKDGHLVARKERSPSGLVLQLTGKGYKRP
>NZ_ALUP01000011.1|WP_000208122.1|479932_480130_-|helix-turn-helix-transcriptional-regulator
MTTITQNRVKELRKQAGLSQQALADQIGVMRKTISHWELGNHRISTDNAKKLSQFFQVSIDDLLE
>NZ_ALUP01000011.1|WP_000938679.1|480126_480312_-|hypothetical-protein
MLQDEFRPIPHKVLTIGRSPKESVIAIPKAIFNLPPEEKAQALKELEEDMEQHKAKGGDST
>NZ_ALUP01000011.1|WP_000822468.1|480313_481339_-|replication-initiator-protein-A
MKRISARQVQSSERFYRIPKIFVESPFYKSMSTDAKFTYAILKDRFELSLKNNWIDKNGDVYLIYTVTELQEILGYGNKKVIKLKKELQEYGLLEEVRQGLNKPNLLYLGNVDYQNVPTEEIHSKPSSVAEVSKQHFQKNQGNVKMTRQKMSKRHANDTENSETELSNDTNRYQGDASLDILSASDSFQMGQHGFLSSKTINRLSLFGKEAKLLENKIYQAKRQVEKDYSHLLQHQEIIYGEVWSQELEREVDKLIFKIKTGENEGKAIKNIPGYFYKMMVRFWKMALLIEKEQGFIALSNQSDYAKSFPEECPSLISYYYPNKLSEKELNQYLTTLRMEE
>NZ_ALUP01000011.1|WP_000166480.1|481340_481505_-|hypothetical-protein
MTKQVQQSRELVLKEIMQSQGVTRTKACSILKELEEFGLFQFSDSGQFMLKVGA
>NZ_ALUP01000011.1|WP_000447421.1|481611_482055_-|hypothetical-protein
METGIKKGHFKESVEKRIHSQHMRIEPNISNRSTRIRDISYDQSKKLYRVTIVRNGIRYGGKHFKKLGEAQKYKKQLLEDIKRKIKESQMSQTAIAQLTKNMMVFNVVVLSLGYFNVIPYKWSLILWGSAVFTAIFNEISKQIPDEK
>NZ_ALUP01000011.1|WP_000191926.1|482320_482578_-|DUF3850-domain-containing-protein
MTQHLLNCYPEYFEAIMDGTKTFECRYNDRDFKVGDELLLREYDPQKGYTYRCIVRKITYILSDFIGLKDGYVILGVTNEPIDYF
>NZ_ALUP01000011.1|WP_001282475.1|482761_483133_-|hypothetical-protein
MSDNIEIIMDIETLDIFEVIDLDEEKGVTVSDSETFPKEEKASPYDDLNRIWLRNGYYYKPSSLLWEVIENGIIHDLSSRNKHGTYPYYQNLRDGTWGHVKQLTQEEALWLTLELNPDLMNYV
>NZ_ALUP01000011.1|WP_000481327.1|483246_484230_-|GMP-reductase
MFNDIPVFDYEDIQLIPNKCIISSRSQADTSVKLGNYTFKLPVIPANMQTIIDEEVAETLACEGYFYIMHRFNEEERKPFIKRMHDKGLIASISVGVKDYEYDFVTSLKEDAPEFITIDIAHGHSNSVIEMIQHIKQELPETFVIAGNVGTPEAVRELENAGADATKVGIGPGKVCITKVKTGFGTGGWQLAALRWCSKAARKPIIADGGIRTHGDIAKSIRFGASMVMIGSLFAGHLESPGKLVEVDGQQFKEYYGSASEYQKGEHKNVEGKKILLPVKGRLEDTLTEMQQDLQSSISYAGGKELDSLRHVDYVIVKNSIWNGDSI
>NZ_ALUP01000011.1|WP_000162146.1|484432_485773_-|MFS-transporter
MTKKGWRIMPAIITTAILGFSGILIETSMNVTFPLLMKEFGVNPAVIQWVTTGNLLAVAVTVPLSAFMIKNLSERQIFTLANVLFLSGVLIDSFAPNLAILLVGRVLQGVGTGLALPLLFHIILTQIPMERRGLMMGVAAMVTLLAPAVGPTYGGVISGMLGWKMIFMLLAPILIISTFIGLASIPKRQVRINDKLNFPAFVSLGIGLATLLLAIEKMSIFYLLVAIVSFVIFYYLNKQLEFLNLNVFKDKDFSILLYGVLAFQMIPLALSFLLPNLLQLVLHQTSTKAGLFMFPGAIAVVFLSPFAGYLLDKIGAFKPIMIGISLSLIGLIGTAIFIPAKFVVVLLAFDILTKIGMGIGASNMVTTALTKLKPAQSADGNSILNTLQQFAGAFATAVASQIFTIGQVAIPKNGAIIGSQFAVLFVIIVVILAIVGLTYLRKRKAI

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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
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NZ_CP020429	Streptococcus sp. FDAARGOS_192 plasmid unnamed1, complete sequence	95485-95514	0	1.0
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NC_015876	Streptococcus pseudopneumoniae IS7493 plasmid pDRPIS7493, complete sequence	1739-1768	0	1.0
NZ_ALUP01000011_1	1.7\|263882\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263882-263911	30	MK448742	Streptococcus phage Javan37, complete genome	28973-29002	0	1.0
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NZ_LR135350	Enterococcus faecium isolate E8202 plasmid 7	3783-3812	1	0.967
NZ_ALUP01000011_1	1.7\|263882\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263882-263911	30	MK448956	Streptococcus phage Javan48, complete genome	32279-32308	1	0.967
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NC_010096	Streptococcus agalactiae plasmid pMV158, complete sequence	221-250	2	0.933
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	HG796789	Uncultured bacterium plasmid pRGF00031	2270-2299	2	0.933
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	HG796317	Uncultured bacterium plasmid pRGI00402	1971-2000	2	0.933
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NC_001380	Streptococcus agalactiae plasmid pLS1, complete sequence	221-250	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448796	Streptococcus phage Javan53, complete genome	36041-36070	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448971	Streptococcus phage Javan52, complete genome	32226-32255	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448829	Streptococcus phage Javan7, complete genome	26921-26950	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448956	Streptococcus phage Javan48, complete genome	30545-30574	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MH853355	Streptococcus phage LF1, complete genome	17778-17807	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MH853358	Streptococcus phage LF4, complete genome	17778-17807	2	0.933
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	MK448924	Streptococcus phage Javan384, complete genome	7947-7976	2	0.933
NZ_ALUP01000011_1	1.7\|263882\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263882-263911	30	MK448796	Streptococcus phage Javan53, complete genome	37775-37804	2	0.933
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448837	Streptococcus phage Javan10, complete genome	25450-25479	3	0.9
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448742	Streptococcus phage Javan37, complete genome	27241-27270	3	0.9
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448851	Streptococcus phage Javan14, complete genome	31180-31209	3	0.9
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	AJ609634	Bacteriophage EJ-1 proviral DNA, complete genome	10413-10442	3	0.9
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	NC_005294	Streptococcus prophage EJ-1, complete genome	10413-10442	3	0.9
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MK448749	Streptococcus phage Javan39, complete genome	31818-31847	4	0.867
NZ_ALUP01000011_1	1.5\|263750\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263750-263779	30	MH853356	Streptococcus phage LF2, partial genome	31159-31188	4	0.867
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NZ_CP053793	Streptococcus canis strain HL_77_1 plasmid pSC77-1, complete sequence	3458-3487	6	0.8
NZ_ALUP01000011_1	1.2\|263549\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263549-263578	30	MF161328	Streptococcus phage D4276, complete genome	7824-7853	6	0.8
NZ_ALUP01000011_1	1.2\|263549\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263549-263578	30	NZ_CP014203	Clostridium baratii strain CDC51267 plasmid pNPD11_1, complete sequence	102320-102349	7	0.767
NZ_ALUP01000011_1	1.2\|263549\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263549-263578	30	NZ_MK275619	Clostridium perfringens strain JXJA17 plasmid p1, complete sequence	29705-29734	7	0.767
NZ_ALUP01000011_1	1.2\|263549\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263549-263578	30	MH892353	Streptococcus phage SW2, complete genome	9889-9918	7	0.767
NZ_ALUP01000011_1	1.2\|263549\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263549-263578	30	MH973661	Streptococcus phage SW5, complete genome	9747-9776	7	0.767
NZ_ALUP01000011_1	1.3\|263615\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263615-263644	30	NZ_CP046163	Vibrio sp. THAF191c plasmid pTHAF191c_b, complete sequence	1820533-1820562	7	0.767
NZ_ALUP01000011_1	1.3\|263615\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263615-263644	30	NZ_CP046066	Vibrio sp. THAF191d plasmid pTHAF191d_b, complete sequence	156125-156154	7	0.767
NZ_ALUP01000011_1	1.3\|263615\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263615-263644	30	NZ_CP045356	Vibrio sp. THAF64 plasmid pTHAF64_a, complete sequence	1604685-1604714	7	0.767
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	NZ_CP044019	Acinetobacter indicus strain HY20 plasmid pAI01, complete sequence	64701-64730	7	0.767
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	MN855940	Myoviridae sp. isolate 64, complete genome	2455-2484	7	0.767
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	CAJCJZ010000002	Enterococcus phage vB_EfaS_140 genome assembly, contig: phage140-genome, whole genome shotgun sequence	37602-37631	7	0.767
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	MT119360	Enterococcus phage nattely, complete genome	46883-46912	7	0.767
NZ_ALUP01000011_1	1.8\|263948\|30\|NZ_ALUP01000011\|CRISPRCasFinder,CRT	263948-263977	30	MT778840	Rhizobium phage P11VFA, complete genome	28085-28114	7	0.767
NZ_ALUP01000011_1	1.8\|263948\|30\|NZ_ALUP01000011\|CRISPRCasFinder,CRT	263948-263977	30	KF614509	Rhizobium phage vB_RleS_L338C, complete genome	63260-63289	7	0.767
NZ_ALUP01000011_1	1.8\|263948\|30\|NZ_ALUP01000011\|CRISPRCasFinder,CRT	263948-263977	30	MF417890	Uncultured Caudovirales phage clone 7F_15, partial genome	31755-31784	7	0.767
NZ_ALUP01000011_1	1.8\|263948\|30\|NZ_ALUP01000011\|CRISPRCasFinder,CRT	263948-263977	30	MF417953	Uncultured Caudovirales phage clone 7S_15, partial genome	5050-5079	7	0.767
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	MK448665	Streptococcus phage Javan1, complete genome	31865-31894	8	0.733
NZ_ALUP01000011_1	1.6\|263816\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263816-263845	30	NZ_CP053834	Arcobacter cloacae strain LMG 26153 plasmid pACLO, complete sequence	102759-102788	8	0.733
NZ_ALUP01000011_1	1.1\|263483\|30\|NZ_ALUP01000011\|PILER-CR,CRISPRCasFinder,CRT	263483-263512	30	NZ_CP054613	Paenibacillus cellulosilyticus strain KACC 14175 plasmid unnamed4, complete sequence	2414834-2414863	9	0.7

1. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP020429 (Streptococcus sp. FDAARGOS_192 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
aagagattcacgccaccgaccgtatcgctg	Protospacer
******************************

2. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NC_015876 (Streptococcus pseudopneumoniae IS7493 plasmid pDRPIS7493, complete sequence) position: , mismatch: 0, identity: 1.0

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
aagagattcacgccaccgaccgtatcgctg	Protospacer
******************************

3. spacer 1.7|263882|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448742 (Streptococcus phage Javan37, complete genome) position: , mismatch: 0, identity: 1.0

aaacatccgcaacgggataaataaagctag	CRISPR spacer
aaacatccgcaacgggataaataaagctag	Protospacer
******************************

4. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LR135350 (Enterococcus faecium isolate E8202 plasmid 7) position: , mismatch: 1, identity: 0.967

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
aagagattcacaccaccgaccgtatcgctg	Protospacer
***********.******************

5. spacer 1.7|263882|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448956 (Streptococcus phage Javan48, complete genome) position: , mismatch: 1, identity: 0.967

aaacatccgcaacgggataaataaagctag	CRISPR spacer
aaacatccgcaacgggataaataaagttag	Protospacer
**************************.***

6. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NC_010096 (Streptococcus agalactiae plasmid pMV158, complete sequence) position: , mismatch: 2, identity: 0.933

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
atgagattcacaccaccgaccgtatcgctg	Protospacer
* *********.******************

7. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to HG796789 (Uncultured bacterium plasmid pRGF00031) position: , mismatch: 2, identity: 0.933

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
atgagattcacaccaccgaccgtatcgctg	Protospacer
* *********.******************

8. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to HG796317 (Uncultured bacterium plasmid pRGI00402) position: , mismatch: 2, identity: 0.933

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
atgagattcacaccaccgaccgtatcgctg	Protospacer
* *********.******************

9. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NC_001380 (Streptococcus agalactiae plasmid pLS1, complete sequence) position: , mismatch: 2, identity: 0.933

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
atgagattcacaccaccgaccgtatcgctg	Protospacer
* *********.******************

10. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448796 (Streptococcus phage Javan53, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttacaagcagtttaaattcc	Protospacer
***********************.****.*

11. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448971 (Streptococcus phage Javan52, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gttggagattttataagcagtttgaatttc	Protospacer
*.***********.****************

12. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448829 (Streptococcus phage Javan7, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttacaagcagtttaaattcc	Protospacer
***********************.****.*

13. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448956 (Streptococcus phage Javan48, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gttggagattttataagcagtttgaatttc	Protospacer
*.***********.****************

14. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MH853355 (Streptococcus phage LF1, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttacaagcagtttaaattcc	Protospacer
***********************.****.*

15. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MH853358 (Streptococcus phage LF4, complete genome) position: , mismatch: 2, identity: 0.933

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttacaagcagtttaaattcc	Protospacer
***********************.****.*

16. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448924 (Streptococcus phage Javan384, complete genome) position: , mismatch: 2, identity: 0.933

aatcacttctgcataaatatcttttacttc	CRISPR spacer
gataacttctgcataaatatcttttacttc	Protospacer
.** **************************

17. spacer 1.7|263882|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448796 (Streptococcus phage Javan53, complete genome) position: , mismatch: 2, identity: 0.933

aaacatccgcaacgggataaataaagctag	CRISPR spacer
gaacatccgcaacggaataaataaagctag	Protospacer
.**************.**************

18. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448837 (Streptococcus phage Javan10, complete genome) position: , mismatch: 3, identity: 0.9

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttataagcagtttaaattcc	Protospacer
*************.*********.****.*

19. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448742 (Streptococcus phage Javan37, complete genome) position: , mismatch: 3, identity: 0.9

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gctggagattttataagcagtttaaattcc	Protospacer
*************.*********.****.*

20. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448851 (Streptococcus phage Javan14, complete genome) position: , mismatch: 3, identity: 0.9

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gttggagattttataagcaatttgaatttc	Protospacer
*.***********.*****.**********

21. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to AJ609634 (Bacteriophage EJ-1 proviral DNA, complete genome) position: , mismatch: 3, identity: 0.9

aatcacttctgcataaatatcttttacttc	CRISPR spacer
gataacttctgcataaatatctttcacttc	Protospacer
.** ********************.*****

22. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NC_005294 (Streptococcus prophage EJ-1, complete genome) position: , mismatch: 3, identity: 0.9

aatcacttctgcataaatatcttttacttc	CRISPR spacer
gataacttctgcataaatatctttcacttc	Protospacer
.** ********************.*****

23. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448749 (Streptococcus phage Javan39, complete genome) position: , mismatch: 4, identity: 0.867

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gttggagattttataagcagtttaaattcc	Protospacer
*.***********.*********.****.*

24. spacer 1.5|263750|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MH853356 (Streptococcus phage LF2, partial genome) position: , mismatch: 4, identity: 0.867

gctggagattttacaagcagtttgaatttc	CRISPR spacer
gttggagattttataagcagtttaaattcc	Protospacer
*.***********.*********.****.*

25. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP053793 (Streptococcus canis strain HL_77_1 plasmid pSC77-1, complete sequence) position: , mismatch: 6, identity: 0.8

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
tgaggcttcacaccaccgaccgtatcgctg	Protospacer
 ...* *****.******************

26. spacer 1.2|263549|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MF161328 (Streptococcus phage D4276, complete genome) position: , mismatch: 6, identity: 0.8

ctttatccg-ttttactcattctttttttaa	CRISPR spacer
-tccatttgtttttactccttctttttttaa	Protospacer
 *..**..* ******** ************

27. spacer 1.2|263549|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP014203 (Clostridium baratii strain CDC51267 plasmid pNPD11_1, complete sequence) position: , mismatch: 7, identity: 0.767

ctttatccgttttactcattctttttttaa	CRISPR spacer
acttatccattttactcattcttttcattc	Protospacer
 .******.****************. *

28. spacer 1.2|263549|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_MK275619 (Clostridium perfringens strain JXJA17 plasmid p1, complete sequence) position: , mismatch: 7, identity: 0.767

ctttatccgttttactcattctttttttaa	CRISPR spacer
ttttatccgatttactcattttttgtattt	Protospacer
.******** **********.*** * *

29. spacer 1.2|263549|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MH892353 (Streptococcus phage SW2, complete genome) position: , mismatch: 7, identity: 0.767

ctttatccgttttactcattctttttttaa	CRISPR spacer
ccatttgttttttactccttctttttttaa	Protospacer
*. * * . ******** ************

30. spacer 1.2|263549|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MH973661 (Streptococcus phage SW5, complete genome) position: , mismatch: 7, identity: 0.767

ctttatccgttttactcattctttttttaa	CRISPR spacer
ccatttgttttttactccttctttttttaa	Protospacer
*. * * . ******** ************

31. spacer 1.3|263615|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046163 (Vibrio sp. THAF191c plasmid pTHAF191c_b, complete sequence) position: , mismatch: 7, identity: 0.767

gatagaattgttactttggaaggggaactt	CRISPR spacer
tatagaattgtgactttggaagggaacacg	Protospacer
 ********** ************.*  .

32. spacer 1.3|263615|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046066 (Vibrio sp. THAF191d plasmid pTHAF191d_b, complete sequence) position: , mismatch: 7, identity: 0.767

gatagaattgttactttggaaggggaactt	CRISPR spacer
tatagaattgtgactttggaagggaacacg	Protospacer
 ********** ************.*  .

33. spacer 1.3|263615|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP045356 (Vibrio sp. THAF64 plasmid pTHAF64_a, complete sequence) position: , mismatch: 7, identity: 0.767

gatagaattgttactttggaaggggaactt	CRISPR spacer
tatagaattgtgactttggaagggaacacg	Protospacer
 ********** ************.*  .

34. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP044019 (Acinetobacter indicus strain HY20 plasmid pAI01, complete sequence) position: , mismatch: 7, identity: 0.767

aatcacttctgcataaatatcttttacttc	CRISPR spacer
agctacttgtgcataaatatcatttacctg	Protospacer
*...**** ************ *****.*

35. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MN855940 (Myoviridae sp. isolate 64, complete genome) position: , mismatch: 7, identity: 0.767

aatcacttctgcataaatatcttttacttc	CRISPR spacer
agcccactctccataaatctcttttacttc	Protospacer
*..*  .*** ******* ***********

36. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to CAJCJZ010000002 (Enterococcus phage vB_EfaS_140 genome assembly, contig: phage140-genome, whole genome shotgun sequence) position: , mismatch: 7, identity: 0.767

aatcacttctgcataaatatcttttacttc	CRISPR spacer
gactaattgtgcataaatatcttttagttt	Protospacer
.*..* ** ***************** **.

37. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MT119360 (Enterococcus phage nattely, complete genome) position: , mismatch: 7, identity: 0.767

aatcacttctgcataaatatcttttacttc	CRISPR spacer
tactaattgtgcataaatatcttttagttt	Protospacer
 *..* ** ***************** **.

38. spacer 1.8|263948|30|NZ_ALUP01000011|CRISPRCasFinder,CRT matches to MT778840 (Rhizobium phage P11VFA, complete genome) position: , mismatch: 7, identity: 0.767

agtttcttgtgggttagcttgtccaccata	CRISPR spacer
tcgttcttgtgggtgagcttgtccacgttg	Protospacer
   *********** ***********  *.

39. spacer 1.8|263948|30|NZ_ALUP01000011|CRISPRCasFinder,CRT matches to KF614509 (Rhizobium phage vB_RleS_L338C, complete genome) position: , mismatch: 7, identity: 0.767

agtttcttgtgggttagcttgtccaccata	CRISPR spacer
tcgttcttgtgggtgagcttgtccacgttg	Protospacer
   *********** ***********  *.

40. spacer 1.8|263948|30|NZ_ALUP01000011|CRISPRCasFinder,CRT matches to MF417890 (Uncultured Caudovirales phage clone 7F_15, partial genome) position: , mismatch: 7, identity: 0.767

agtttcttgtgggttagcttgtccaccata	CRISPR spacer
tgcttgttgtggcttagcttgtccactttg	Protospacer
 *.** ****** *************. *.

41. spacer 1.8|263948|30|NZ_ALUP01000011|CRISPRCasFinder,CRT matches to MF417953 (Uncultured Caudovirales phage clone 7S_15, partial genome) position: , mismatch: 7, identity: 0.767

agtttcttgtgggttagcttgtccaccata	CRISPR spacer
tgcttgttgtggcttagcttgtccactttg	Protospacer
 *.** ****** *************. *.

42. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to MK448665 (Streptococcus phage Javan1, complete genome) position: , mismatch: 8, identity: 0.733

aatcacttctgcataaatatcttttacttc	CRISPR spacer
tgcaggttctgcaaaaataacttttacttc	Protospacer
 .. . ******* ***** **********

43. spacer 1.6|263816|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP053834 (Arcobacter cloacae strain LMG 26153 plasmid pACLO, complete sequence) position: , mismatch: 8, identity: 0.733

aatcacttctgcataaatatcttttacttc	CRISPR spacer
tttaacttctgcatcaatatcttttgtata	Protospacer
  * ********** **********.. *

44. spacer 1.1|263483|30|NZ_ALUP01000011|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP054613 (Paenibacillus cellulosilyticus strain KACC 14175 plasmid unnamed4, complete sequence) position: , mismatch: 9, identity: 0.7

aagagattcacgccaccgaccgtatcgctg	CRISPR spacer
cgaactttcacgccaccgatcgtatcgacc	Protospacer
 ..*  *************.******* .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

328990 : 336945

Streptococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001813543.1\|328990_329179_+	hypothetical protein	Q6DMX4	Streptococcus_phage	1.5e-13	90.7
WP_001813542.1\|329175_329421_+	hypothetical protein	A0A1B0RXA7	Streptococcus_phage	2.6e-37	98.8
WP_000806926.1\|329417_329753_+	hypothetical protein	NA	NA	NA	NA
WP_000567222.1\|329765_330134_+	hypothetical protein	A0A1B0RXA8	Streptococcus_phage	1.1e-58	97.5
WP_001072467.1\|330120_330420_+	hypothetical protein	A0A1B0RX98	Streptococcus_phage	1.8e-48	96.0
WP_000420313.1\|330537_332001_-	ABC-F type ribosomal protection protein Msr(D)	A0A1B0RXA0	Streptococcus_phage	3.7e-251	97.3
WP_000417519.1\|332120_333338_-	macrolide efflux MFS transporter Mef(A)	A0A2K5B2B5	Erysipelothrix_phage	5.1e-198	90.6
WP_000873143.1\|333723_333894_-	hypothetical protein	A0A1X9I6E4	Streptococcus_phage	3.7e-22	98.2
WP_000811441.1\|334522_336205_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	1.2e-35	25.8
WP_001244586.1\|336207_336945_-	ATP-binding cassette domain-containing protein	A0A2H4PQG7	Staphylococcus_phage	3.8e-39	44.1

DBSCAN-SWA_2

431589 : 440580

Bacillus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000222544.1\|431589_433308_+	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	1.4e-278	84.8
WP_000746859.1\|433371_433569_-	hypothetical protein	NA	NA	NA	NA
WP_000647638.1\|433582_435316_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	5.1e-50	31.0
WP_000826936.1\|435316_437038_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	2.1e-40	26.7
WP_000472259.1\|437049_437652_-	lysozyme family protein	A0A223LKM8	Bacillus_phage	1.1e-20	40.1
WP_000968655.1\|437653_438631_-	nucleoid-associated protein	NA	NA	NA	NA
WP_000575540.1\|438635_439892_-	serine hydroxymethyltransferase	A0A240F3L3	Aeromonas_phage	1.3e-92	51.7
WP_000998735.1\|439983_440580_-	threonylcarbamoyl-AMP synthase	A0A291ATS8	Pandoravirus	1.1e-15	29.4

Anti-CRISPR protein detection

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

7. NZ_ALUP01000013

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

128505 : 139238

Streptococcus_phage(84.62%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001185979.1\|128505_129270_+	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	4.4e-14	24.3
WP_000178150.1\|129269_129980_+	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	1.2e-13	29.1
WP_001144242.1\|129998_130658_+	CBS domain-containing protein	M1NSC5	Streptococcus_phage	8.0e-65	56.5
WP_000715592.1\|130746_131382_+	dTMP kinase	M1PSC7	Streptococcus_phage	2.8e-67	61.1
WP_000364568.1\|131401_132265_+	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	2.5e-74	50.0
WP_000358198.1\|132295_132622_+	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	3.2e-30	61.1
WP_000425866.1\|132621_133491_+	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	4.1e-109	70.4
WP_000603271.1\|133760_134396_-	copper homeostasis protein CutC	NA	NA	NA	NA
WP_000158397.1\|134528_135620_+	3-phosphoserine/phosphohydroxythreonine transaminase	M1Q1P2	Streptococcus_phage	3.9e-165	78.0
WP_001198082.1\|135688_136237_+	GNAT family acetyltransferase	M1PSC3	Streptococcus_phage	1.4e-54	57.9
WP_000232154.1\|136298_137480_+	phosphoglycerate dehydrogenase	M1NSB9	Streptococcus_phage	9.1e-168	75.3
WP_000966769.1\|137535_138012_+	methylated-DNA--[protein]-cysteine S-methyltransferase	M1PFU9	Streptococcus_phage	1.6e-38	50.9
WP_000287943.1\|138013_138370_+	arsenate reductase family protein	M1PLC0	Streptococcus_phage	5.2e-42	72.6
WP_000767486.1\|138410_139238_-	exodeoxyribonuclease III	M1PSC0	Streptococcus_phage	1.1e-124	78.0

DBSCAN-SWA_2

315367 : 325639

Streptococcus_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000721268.1\|315367_317512_-	LTA synthase family protein	W6LM83	Streptococcus_phage	6.3e-260	67.5
WP_001037596.1\|317646_318804_+	class I SAM-dependent rRNA methyltransferase	W6LLI2	Streptococcus_phage	1.3e-139	66.0
WP_000707048.1\|318803_319481_+	type I 3-dehydroquinate dehydratase	W6LP76	Streptococcus_phage	5.3e-88	68.4
WP_001195736.1\|319574_320642_+	3-dehydroquinate synthase	NA	NA	NA	NA
WP_001269901.1\|320642_321809_+	chorismate synthase	A0A291AU41	Pandoravirus	9.3e-40	34.1
WP_000024620.1\|321892_322228_+	YlbF/YmcA family competence regulator	A0A1X9I5Y8	Streptococcus_phage	8.9e-20	39.4
WP_000043887.1\|322402_323752_+	glutathione-disulfide reductase	A0A2K5B2C5	Erysipelothrix_phage	1.3e-32	25.5
WP_000033715.1\|323794_324247_-	hypothetical protein	NA	NA	NA	NA
WP_000638889.1\|324493_325639_+	cysteine desulfurase	A0A1X6WFP1	Pacmanvirus	4.3e-29	28.7

Anti-CRISPR protein detection

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