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_ALRT01000033	Streptococcus agalactiae STIR-CD-28 ctg120003208977, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000029	Streptococcus agalactiae STIR-CD-28 ctg120003208973, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000006	Streptococcus agalactiae STIR-CD-28 ctg120003208950, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000014	Streptococcus agalactiae STIR-CD-28 ctg120003208958, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000023	Streptococcus agalactiae STIR-CD-28 ctg120003208967, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000007	Streptococcus agalactiae STIR-CD-28 ctg120003208951, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000013	Streptococcus agalactiae STIR-CD-28 ctg120003208957, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000002	Streptococcus agalactiae STIR-CD-28 ctg120003208946, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000026	Streptococcus agalactiae STIR-CD-28 ctg120003208970, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000040	Streptococcus agalactiae STIR-CD-28 ctg120003208984, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000020	Streptococcus agalactiae STIR-CD-28 ctg120003208964, whole genome shotgun sequence	0 crisprs	WYL	0	0	0	0
NZ_ALRT01000017	Streptococcus agalactiae STIR-CD-28 ctg120003208961, whole genome shotgun sequence	1 crisprs	NA	0	0	0	0
NZ_ALRT01000001	Streptococcus agalactiae STIR-CD-28 ctg120003208576, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000028	Streptococcus agalactiae STIR-CD-28 ctg120003208972, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000031	Streptococcus agalactiae STIR-CD-28 ctg120003208975, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000021	Streptococcus agalactiae STIR-CD-28 ctg120003208965, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000012	Streptococcus agalactiae STIR-CD-28 ctg120003208956, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000038	Streptococcus agalactiae STIR-CD-28 ctg120003208982, whole genome shotgun sequence	1 crisprs	csn2,cas2,cas1,cas9	1	2	0	0
NZ_ALRT01000036	Streptococcus agalactiae STIR-CD-28 ctg120003208980, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000008	Streptococcus agalactiae STIR-CD-28 ctg120003208952, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000019	Streptococcus agalactiae STIR-CD-28 ctg120003208963, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000005	Streptococcus agalactiae STIR-CD-28 ctg120003208949, whole genome shotgun sequence	1 crisprs	cas3	0	1	2	0
NZ_ALRT01000003	Streptococcus agalactiae STIR-CD-28 ctg120003208947, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000022	Streptococcus agalactiae STIR-CD-28 ctg120003208966, whole genome shotgun sequence	0 crisprs	cas3	0	0	0	0
NZ_ALRT01000034	Streptococcus agalactiae STIR-CD-28 ctg120003208978, whole genome shotgun sequence	0 crisprs	DEDDh	0	0	0	0
NZ_ALRT01000037	Streptococcus agalactiae STIR-CD-28 ctg120003208981, whole genome shotgun sequence	0 crisprs	DEDDh	0	0	0	0
NZ_ALRT01000016	Streptococcus agalactiae STIR-CD-28 ctg120003208960, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000015	Streptococcus agalactiae STIR-CD-28 ctg120003208959, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000004	Streptococcus agalactiae STIR-CD-28 ctg120003208948, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000039	Streptococcus agalactiae STIR-CD-28 ctg120003208983, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000041	Streptococcus agalactiae STIR-CD-28 ctg120003208985, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000027	Streptococcus agalactiae STIR-CD-28 ctg120003208971, whole genome shotgun sequence	0 crisprs	NA	0	0	0	1
NZ_ALRT01000009	Streptococcus agalactiae STIR-CD-28 ctg120003208953, whole genome shotgun sequence	0 crisprs	csm6	0	0	0	0
NZ_ALRT01000018	Streptococcus agalactiae STIR-CD-28 ctg120003208962, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000011	Streptococcus agalactiae STIR-CD-28 ctg120003208955, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000024	Streptococcus agalactiae STIR-CD-28 ctg120003208968, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000025	Streptococcus agalactiae STIR-CD-28 ctg120003208969, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000035	Streptococcus agalactiae STIR-CD-28 ctg120003208979, whole genome shotgun sequence	0 crisprs	NA	0	0	1	0
NZ_ALRT01000010	Streptococcus agalactiae STIR-CD-28 ctg120003208954, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000032	Streptococcus agalactiae STIR-CD-28 ctg120003208976, whole genome shotgun sequence	0 crisprs	NA	0	0	0	0
NZ_ALRT01000030	Streptococcus agalactiae STIR-CD-28 ctg120003208974, whole genome shotgun sequence	0 crisprs	NA	0	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

42896 : 54961

Gordonia_phage(14.29%)

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_000783424.1\|42896_44201_-	LysM peptidoglycan-binding domain-containing protein	A0A0E3XB61	Gordonia_phage	4.6e-11	36.0
WP_001045908.1\|44347_45247_-	peptidoglycan DD-metalloendopeptidase family protein	A0A221J6U0	Arthrobacter_phage	4.1e-19	45.9
WP_000166558.1\|45439_46987_-	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	E3SNU8	Prochlorococcus_phage	4.4e-45	52.9
WP_000780020.1\|47006_47759_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_000685111.1\|47778_48330_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	1.8e-25	35.6
WP_001291325.1\|48497_49520_-	phosphoribosylformylglycinamidine cyclo-ligase	A0A1D7SE90	Cyanophage	9.6e-65	44.6
WP_000220672.1\|49547_51002_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	6.3e-54	32.5
WP_001042263.1\|51235_54961_-	phosphoribosylformylglycinamidine synthase	A6N228	Microbacterium_phage	1.6e-40	27.0

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_ALRT01000002

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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

146404 : 154486

Staphylococcus_phage(50.0%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000070709.1\|146404_147895_+\|tRNA	lysine--tRNA ligase	A0A1V0SAC0	Catovirus	7.6e-87	38.3
WP_000152414.1\|147969_148440_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.3e-40	52.7
WP_000885818.1\|148454_149648_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	1.0e-110	50.8
WP_000493859.1\|149665_150316_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	4.5e-36	41.5
WP_000975998.1\|150296_151406_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	4.0e-56	37.4
WP_001073017.1\|152134_153475_+	divalent metal cation transporter	NA	NA	NA	NA
WP_001873534.1\|153529_154150_-	hypothetical protein	NA	NA	NA	NA
WP_001288869.1\|154273_154486_-	hypothetical protein	A0A223LEC3	Bacillus_phage	3.3e-12	50.0

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_ALRT01000017

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CRISPR-Cas detection and classification

Crispr_ID: NZ_ALRT01000017_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_ALRT01000017_1

1110-1312

Orphan

Consensus_repeat	Method
TTAGGACCGGCTGGTCCCACTGGTCCTTGTGCTCCAGCTTCACCATCTTT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_ALRT01000017_1

>merge|NZ_ALRT01000017|1|1110-1312|CRISPRCasFinder
TTAGGACCCGCTGGACCCATTGGCCCTTGCGCTCCAGTTTCACCGCGTTCTCCGGCTGGGCCAGCTTCACCTTTAGGACCGGCTGGTCCCACTGGTCCTTGTGCTCCAGCTTCACCATCTTTGCCGGCTGGGCCGGTTTCACCTCGGTCTCCCTTAGGACCGGCTGGTCCCACTGGTCCCTGTGCTCCAGCTTCACCATCTTT

>NZ_ALRT01000017|1|1|1110-1312|CRISPRCasFinder
TTAGGACCCGCTGGACCCATTGGCCCTTGCGCTCCAGTTTCACCGCGTTC	TCCGGCTGGGCCAGCTTCACCTTTAGGACCGGCTGGTCCCACTGGTCCTTGTGCTCCAGCTTCACCATCTTTGCCGGCTGGGCCGGTTTCACCTCGGTCTCCC
TTAGGACCGGCTGGTCCCACTGGTCCCTGTGCTCCAGCTTCACCATCTTT

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

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

4. NZ_ALRT01000027

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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_ALRT01000027.1|WP_000384271.1|15642_15969_-|hypothetical-protein

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_ALRT01000027.1|WP_000384271.1|15642_15969_-|hypothetical-protein

15642_15969_-

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

5. NZ_ALRT01000040

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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

44535 : 53523

Bacillus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000998734.1\|44535_45132_+	threonylcarbamoyl-AMP synthase	A0A291ATS8	Pandoravirus	3.7e-16	29.4
WP_000575546.1\|45223_46480_+	serine hydroxymethyltransferase	A0A240F3L3	Aeromonas_phage	7.8e-93	51.7
WP_000968655.1\|46484_47462_+	nucleoid-associated protein	NA	NA	NA	NA
WP_000472259.1\|47463_48066_+	lysozyme family protein	A0A223LKM8	Bacillus_phage	1.1e-20	40.1
WP_000826945.1\|48077_49796_+	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	2.8e-40	26.7
WP_000647647.1\|49796_51530_+	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	1.0e-50	31.2
WP_000746856.1\|51543_51741_+	hypothetical protein	NA	NA	NA	NA
WP_000222544.1\|51804_53523_-	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	1.4e-278	84.8

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_ALRT01000005

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CRISPR-Cas detection and classification

Crispr_ID: NZ_ALRT01000005_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_ALRT01000005_1

99845-99931

Orphan

Consensus_repeat	Method
GCTCAAACTAAGTACGATACTGCT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_ALRT01000005_1

>merge|NZ_ALRT01000005|1|99845-99931|CRISPRCasFinder
GCTCAAACTAAGTACGATACTGCTGTTAAAGCAGACCAAGATGCTAAAGTTAAGTTGGCTAAGGCTCAAACTGAGTACGATACTGCT

>NZ_ALRT01000005|1|1|99845-99931|CRISPRCasFinder
GCTCAAACTAAGTACGATACTGCT	GTTAAAGCAGACCAAGATGCTAAAGTTAAGTTGGCTAAG
GCTCAAACTGAGTACGATACTGCT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_ALRT01000005.1\|WP_000852726.1\|100799_101261_+\|hypothetical-protein	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_001019353.1\|91020_92286_-\|site-specific-integrase	unknown	unknown	gnl\|CDD\|271189
NZ_ALRT01000005.1\|WP_001180636.1\|96486_97443_+\|hypothetical-protein	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_000185201.1\|92728_94000_-\|replication-protein-RepA	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_000458739.1\|95958_96252_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_000661406.1\|97479_97815_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NZ_ALRT01000005.1\|WP_000097743.1\|92382_92646_-\|MerR-family-transcriptional-regulator	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_000186296.1\|89976_90648_-\|peptidase	unknown	unknown	gnl\|CDD\|225753
NZ_ALRT01000005.1\|WP_000027783.1\|94163_94910_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|224588
NZ_ALRT01000005.1\|WP_000190889.1\|95436_95877_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALRT01000005.1\|WP_000614740.1\|94909_95440_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NZ_ALRT01000005.1\|WP_001019353.1\|91020_92286_-\|site-specific-integrase	gnl\|CDD\|271189	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons. This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.	5.90804e-32
NZ_ALRT01000005.1\|WP_000027783.1\|94163_94910_-\|hypothetical-protein	gnl\|CDD\|224588	COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning].	1.02593e-08
NZ_ALRT01000005.1\|WP_000661406.1\|97479_97815_-\|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.	6.5066e-07
NZ_ALRT01000005.1\|WP_000186296.1\|89976_90648_-\|peptidase	gnl\|CDD\|225753	COG3212, COG3212, Predicted membrane protein [Function unknown].	2.46486e-08

>NZ_ALRT01000005.1|WP_000661406.1|97479_97815_-|helix-turn-helix-transcriptional-regulator
MKELNLRAYIGKRIRILRTQKHLTQQQLEEDADLPLKYTYKLENLEPNITVETLEKIMTALDTNIESFFDISLKEDNPLTNQLLSKIAEFPASKQERLLKLLINIIDEVEK
>NZ_ALRT01000005.1|WP_001180636.1|96486_97443_+|hypothetical-protein
MQNNISCFEVLENLYKENTEFKNEFKQIIFDIAILKKYITYWQTYDFLTKFRDKILPKQFRGGSKGGFIEDYDSDNKMKEWKSFSAKGTTKFVISLVFQEIKEESEEIKDMLRGGIESYLQDKDPELNELLLSQEDKDLIRSCSNVVKKYENITKIYNVRYSIFELSSEQLNNMKSYLLQFIMDSQDKNNFDLEYTALEEYLNQKNFLNLLEELTANLINSQNKSEAQKNIMGIMFLLAKVRIGITESSALQTREVTNDKGRKPLLNIPTKMNLNELSEENQKLQKELEVLLEPLLNSRFILNNLYEFYFECRGNLQI
>NZ_ALRT01000005.1|WP_000458739.1|95958_96252_-|hypothetical-protein
MFCQEILVTVSVLGVSPEIDFETKQATGNIKIDAGFRNSSGKHITRTIKIANSTVSEYSTYLDEKVNLRLERVTFSPYLTNGRAALSIKAESATIEE
>NZ_ALRT01000005.1|WP_000190889.1|95436_95877_-|hypothetical-protein
MATIFKKTIKQTPTITFDKCVTECEKILGVLGIDQLVNLSVKDRMKLSKKFEYNSYDSRGILSLQALVPKYAIKKDSLLLKQRENSFVTTAQRQHAQKLYDKISRAVNSYPYGVITCYEFEQWIDEHLRLYIMLKYDKDFEGDNIL
>NZ_ALRT01000005.1|WP_000614740.1|94909_95440_-|hypothetical-protein
MIQILQLVFYFIIIFFIPYLGLILVNTVILIYTLPAEQLLPQAIQNTNLQIQKWLKSFNVFPKERDCYSDFYIELTHQAIKLRPCLNTGLYPNGVQREGMDFYLWLSKVPDPKEFEPWKMQLRQTVRTYDDNLDVLFNMIEEEPFLKLKMNLVPKIELNQLEHGQPKALYNEEGEV
>NZ_ALRT01000005.1|WP_000027783.1|94163_94910_-|hypothetical-protein
MSIRLKILRQEGSNEPVSWDTIRYPHMLISAPTNSGKSYFIKYLLSILAIHSTDASIMILDYKQGTDYWQWIDSDNVFLGDSVYDGFRQAYKIFENRRLDPKKEYPPFFLIFEEYQSTIESISKKADKDEFLRLVGNLLRLSRQVNYHLICICQRVDASVFPAGGRENFAAKISIGRLSPQAKQMLFPDDGVNCNKGQGEVNFQFDGQPVIEAKTYTIRDMEKAKHLITDLLNRGLPQSDETVAKGEP
>NZ_ALRT01000005.1|WP_000185201.1|92728_94000_-|replication-protein-RepA
MTNSNISSDFRANSFCCVLNNVDKLFDKESVFFDSDKYKEKTKKRIQEFRKLLPDTNEPLNPEEIVDFLMERWMARNENVVCAINYEIGDNGVHHCHMVLEDKKAFRFSALQKLYPTIHAEITRGTKEQVIAYLEKSGEHEEKAHTIVVPMKVHGELRARNQGHRSDFDYIQRQIENGATPEEIMMGNLEYRKYSKMIREHFFQHRFAQTPDIKDMKVYWHVGESGSGKSHTQVHLKQEFGRDNVYIWTDFDNGGLDLYCAEPILFMDEFKGMSYKEFLKVTDVYPVQLHARYTNTIALWNEIHITSIFTPKEAYGLMVPESQQEVDSYKQLQRRLTNVIYHFKIREDDGNFKYKTITFTPEDFERHNQEQIEKFAYLFDKFNPNVLNYDFTKDAFHLSMNPINNKKKKATTLKLTKAESNSK
>NZ_ALRT01000005.1|WP_000097743.1|92382_92646_-|MerR-family-transcriptional-regulator
MSSNNFDLKQIELMLLTVIDLLKHLNTEKNKTGIIYTQKELLDLLSISPNTLKSWENRGLKRLEPPIEGTRTVYYHIDTVLEFLSHN
>NZ_ALRT01000005.1|WP_001019353.1|91020_92286_-|site-specific-integrase
MNIEKIIHKGKTVLKKVKDNGEISYSAKSIYLGLDIKTGKPVKTTVTAKTLRSLDRKIIQAKIDFEESGSTRKETFSIATLSDLAELWFSNYETWVSSDNTLNRVRNYLDTYILPQFGQYQPDKVTSSDIQNWVNELATKSKESVDSGIKRAEKGCAKDFGAIAHKLSDIFDFGITHFELKHNPAQSIKIPPKPKSNQKRIMVLHDEDLTIWLNFVDTLPNTRANRRFKVICDSLLASGMRINELLALTIYDLDFESSEILVTKTLVWKNAKPKLGLKGKVVCKNTPKSDSGNRKIAVPYQIIEQLQNFHDEMNLYFKKNGLSKSKLIFPTIYGNYMCDRNERATLKRRLQEVGLPDYGFHLFRHTHASMMLNAGMNWKELQVRMGHKSIKTTMDIYAELAPKNQTQAVDIYLNKIAELTS
>NZ_ALRT01000005.1|WP_000186296.1|89976_90648_-|peptidase
MTNYKNNLKKFMSNKLYVGLASITLLGIGGAIGVSGAALAHNHHSEHMSFEHKHEGHDKHHDHREKHSLKTLKNISTKIDYKTALETAKKEARSGFISQIELNTKGDTPFYEIKVIDNKIAKKYKIDANSGKILSTTSDNQLNSKDAQLKQPSKDIQTALQAIQAKYKNAKIKEISLANNKSNKLVYKVKLLDGNTPKIAQFDSDKASFIKANKLNTTHKNHD
>NZ_ALRT01000005.1|WP_000852726.1|100799_101261_+|hypothetical-protein
MAEVTTIVYRLGSQYDEKMSAISVFDAHLFHAKCHGDKVLFTVPTQNNTKVGKKVEKIDNIILTLKDGSKSLFAEVDAHGVFPEKVKDGYIYTLPSQWNVFEEIEQGYTWFALKGVKEISEEELNSYKSTNERECPLLQSISGASCRIYVTEE

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

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_ALRT01000005_1	1.1\|99869\|39\|NZ_ALRT01000005\|CRISPRCasFinder	99869-99907	39	DQ535032	Lactococcus lactis phage KSY1, complete genome	76516-76554	11	0.718
NZ_ALRT01000005_1	1.1\|99869\|39\|NZ_ALRT01000005\|CRISPRCasFinder	99869-99907	39	NC_009817	Lactococcus phage KSY1, complete genome	76516-76554	11	0.718

1. spacer 1.1|99869|39|NZ_ALRT01000005|CRISPRCasFinder matches to DQ535032 (Lactococcus lactis phage KSY1, complete genome) position: , mismatch: 11, identity: 0.718

gttaaagcagaccaagatgctaaagttaagttggctaag	CRISPR spacer
gaacaagcagaacaagatgctaaagttgagttattgtat	Protospacer
*   ******* ***************.****. .  *

2. spacer 1.1|99869|39|NZ_ALRT01000005|CRISPRCasFinder matches to NC_009817 (Lactococcus phage KSY1, complete genome) position: , mismatch: 11, identity: 0.718

gttaaagcagaccaagatgctaaagttaagttggctaag	CRISPR spacer
gaacaagcagaacaagatgctaaagttgagttattgtat	Protospacer
*   ******* ***************.****. .  *

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

40062 : 47266

Streptococcus_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000706190.1\|40062_41307_+	insulinase family protein	A0A1X9I714	Streptococcus_phage	1.7e-87	41.5
WP_000217765.1\|41308_42592_+	insulinase family protein	A0A2K9V7S4	Bandra_megavirus	1.6e-21	33.3
WP_000239224.1\|42714_43257_+	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase	NA	NA	NA	NA
WP_000181757.1\|43256_44096_+	energy-coupling factor transporter ATPase	G9BWD6	Planktothrix_phage	3.5e-20	30.0
WP_000510606.1\|44071_44914_+	energy-coupling factor transporter ATPase	W6JKT0	Anomala_cuprea_entomopoxvirus	2.5e-18	25.5
WP_000359358.1\|44906_45701_+	energy-coupling factor transporter transmembrane protein EcfT	NA	NA	NA	NA
WP_000029067.1\|45916_46456_+	LysM peptidoglycan-binding domain-containing protein	A0A249XZV3	Enterococcus_phage	3.0e-17	46.4
WP_001042661.1\|46561_47266_+	transglycosylase SLT domain-containing protein	A0A2H4J6C5	uncultured_Caudovirales_phage	3.2e-27	56.6

DBSCAN-SWA_2

55568 : 71184

Streptococcus_phage(61.54%)

integrase

attL 58147:58166|attR 72022:72041

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000852645.1\|55568_56924_+	replicative DNA helicase	A0A1P8VVQ6	Streptococcus_phage	1.2e-152	62.6
WP_001278152.1\|56935_57223_+	hypothetical protein	NA	NA	NA	NA
WP_000092759.1\|57552_58164_+	30S ribosomal protein S4	NA	NA	NA	NA
58147:58166	attL	NA	NA	NA	NA
WP_000605384.1\|58270_59443_-\|integrase	site-specific integrase	A0A1X9I5Y5	Streptococcus_phage	5.7e-154	70.1
WP_000429451.1\|59774_60740_-	DUF3644 domain-containing protein	A0A0N9RUA4	Staphylococcus_phage	7.1e-86	51.1
WP_000946250.1\|61277_61565_-	DUF3102 domain-containing protein	A0A286QMZ8	Streptococcus_phage	1.9e-10	61.4
WP_001080841.1\|61576_62191_-	helix-turn-helix transcriptional regulator	A0A1X9I723	Streptococcus_phage	2.6e-17	68.7
WP_000359663.1\|62396_62597_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_001258618.1\|62620_63223_+	phage repressor protein	A0A1W6JPC3	Staphylococcus_phage	5.1e-42	47.2
WP_001021393.1\|63458_64097_+	Bro-N domain-containing protein	NA	NA	NA	NA
WP_011285274.1\|64180_64372_+	hypothetical protein	NA	NA	NA	NA
WP_000916925.1\|64512_64965_+	hypothetical protein	NA	NA	NA	NA
WP_000877495.1\|65053_65386_+	hypothetical protein	NA	NA	NA	NA
WP_094969808.1\|65385_65577_+	hypothetical protein	NA	NA	NA	NA
WP_000174496.1\|65588_65918_+	hypothetical protein	NA	NA	NA	NA
WP_001100458.1\|65920_66193_+	hypothetical protein	A0A1X9I5U9	Streptococcus_phage	1.4e-18	60.0
WP_001029288.1\|66193_67063_+	hypothetical protein	A0A1X9I6L2	Streptococcus_phage	7.7e-116	71.4
WP_000838179.1\|67082_68585_+	DNA primase	Q9AZI5	Lactococcus_phage	3.5e-63	36.9
WP_000173127.1\|68949_69495_+	hypothetical protein	A0A1X9I5U4	Streptococcus_phage	1.2e-26	57.0
WP_000891150.1\|69568_70057_+	hypothetical protein	A0A1X9I5V2	Streptococcus_phage	1.2e-49	58.0
WP_001274639.1\|70460_70823_+	DUF1492 domain-containing protein	A0A2H4JFS1	uncultured_Caudovirales_phage	1.8e-05	29.9
WP_000038827.1\|70797_71184_+	ArpU family phage encoded transcriptional regulator	Q938L8	Temperate_phage	7.1e-13	38.5
72022:72041	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

7. NZ_ALRT01000035

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

15504 : 25777

Streptococcus_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000638897.1\|15504_16650_-	cysteine desulfurase	A0A1X6WFP1	Pacmanvirus	7.3e-29	28.4
WP_000033716.1\|16896_17349_+	hypothetical protein	NA	NA	NA	NA
WP_000043879.1\|17392_18742_-	glutathione-disulfide reductase	A0A2K5B2C5	Erysipelothrix_phage	2.2e-32	25.5
WP_000024627.1\|18916_19252_-	YlbF/YmcA family competence regulator	A0A1X9I5Y8	Streptococcus_phage	1.2e-19	39.4
WP_001269902.1\|19335_20502_-	chorismate synthase	A0A291AU41	Pandoravirus	7.1e-40	34.4
WP_001195735.1\|20502_21570_-	3-dehydroquinate synthase	NA	NA	NA	NA
WP_000707048.1\|21663_22341_-	type I 3-dehydroquinate dehydratase	W6LP76	Streptococcus_phage	5.3e-88	68.4
WP_001037600.1\|22340_23498_-	class I SAM-dependent rRNA methyltransferase	W6LLI2	Streptococcus_phage	4.6e-140	66.0
WP_000721261.1\|23632_25777_+	LTA synthase family protein	W6LM83	Streptococcus_phage	6.3e-260	67.5

Anti-CRISPR protein detection

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

8. NZ_ALRT01000036

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

33 : 35015

Streptococcus_phage(100.0%)

head,protease,holin,capsid,tail,portal,terminase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001873559.1\|33_1155_-	DUF2800 domain-containing protein	A0A1X9I6D8	Streptococcus_phage	2.6e-196	87.9
WP_000041407.1\|1147_1471_-	hypothetical protein	A0A1B0RXB7	Streptococcus_phage	2.0e-32	71.2
WP_001160920.1\|1867_4153_+	hypothetical protein	E4ZFK6	Streptococcus_phage	0.0e+00	79.1
WP_001208492.1\|4436_4718_+	VRR-NUC domain-containing protein	M1PFY8	Streptococcus_phage	7.9e-38	79.6
WP_000768926.1\|4698_6075_+	DEAD/DEAH box helicase	A0A1X9I6B0	Streptococcus_phage	5.2e-231	86.2
WP_000356300.1\|6067_6565_+	hypothetical protein	A0A1B0RXB9	Streptococcus_phage	4.3e-63	75.0
WP_000640707.1\|6957_7995_+	methionine adenosyltransferase	E4ZFL0	Streptococcus_phage	2.2e-170	84.9
WP_001138031.1\|7996_8362_+	HNH endonuclease	A0A1B0RXJ3	Streptococcus_phage	6.6e-61	86.0
WP_000999418.1\|8649_9105_+	hypothetical protein	A0A1B0RXC6	Streptococcus_phage	5.4e-44	51.0
WP_000211620.1\|9076_10333_+	DNA modification methylase	A0A1B0RXE5	Streptococcus_phage	7.5e-221	90.7
WP_000176350.1\|10329_11583_+	DNA (cytosine-5-)-methyltransferase	M1NSK8	Streptococcus_phage	2.5e-232	93.8
WP_000164539.1\|11660_11915_+	hypothetical protein	NA	NA	NA	NA
WP_000342209.1\|11925_12375_+	DUF4314 domain-containing protein	E4ZFL7	Streptococcus_phage	2.1e-16	65.2
WP_000220985.1\|12881_14474_+\|terminase	terminase large subunit	A0A1B0RXJ8	Streptococcus_phage	1.5e-306	95.5
WP_001140392.1\|14529_14832_+	type II toxin-antitoxin system RelB/DinJ family antitoxin	NA	NA	NA	NA
WP_000666489.1\|14831_15137_+	type II toxin-antitoxin system RelE/ParE family toxin	NA	NA	NA	NA
WP_000424367.1\|15153_15426_+	hypothetical protein	E4ZFM1	Streptococcus_phage	4.1e-07	78.0
WP_000523688.1\|15506_16796_+\|portal	phage portal protein	E4ZFM3	Streptococcus_phage	2.0e-229	91.0
WP_001225236.1\|16788_17487_+\|protease	Clp protease ClpP	A0A1B0RXE1	Streptococcus_phage	1.4e-104	82.8
WP_000040500.1\|17500_18709_+\|capsid	phage major capsid protein	E4ZFM5	Streptococcus_phage	6.8e-211	91.3
WP_000988605.1\|18705_18963_+\|head,tail	phage gp6-like head-tail connector protein	D0R0D7	Streptococcus_phage	4.3e-30	78.8
WP_000684962.1\|18962_19301_+\|head,tail	head-tail adaptor protein	A0A1B0RXE4	Streptococcus_phage	1.2e-37	69.6
WP_000161241.1\|19293_19662_+	HK97 gp10 family phage protein	Q6DMT7	Streptococcus_phage	9.1e-34	62.1
WP_001209971.1\|19670_19997_+	hypothetical protein	M1Q1Z4	Streptococcus_phage	5.4e-38	67.6
WP_000818565.1\|19999_20569_+	hypothetical protein	E4ZFM9	Streptococcus_phage	5.1e-100	97.3
WP_001249616.1\|20580_21000_+	hypothetical protein	A0A1X9I691	Streptococcus_phage	2.8e-55	75.5
WP_000918343.1\|21294_24414_+	hypothetical protein	Q6DMT2	Streptococcus_phage	3.5e-259	78.0
WP_000589863.1\|24410_25136_+	hypothetical protein	Q6DMT1	Streptococcus_phage	2.1e-82	58.8
WP_000966169.1\|25135_28051_+	carbamoylsarcosine amidase	Q6DMT0	Streptococcus_phage	0.0e+00	64.6
WP_000796404.1\|28063_29920_+	hypothetical protein	Q6DMS9	Streptococcus_phage	2.7e-259	73.3
WP_000661349.1\|29937_30336_+\|holin	phage holin family protein	D0R0E9	Streptococcus_phage	5.1e-38	60.8
WP_000143479.1\|30337_31744_+	LysM peptidoglycan-binding domain-containing protein	A0A1B0RXL4	Streptococcus_phage	3.7e-107	63.4
WP_000123549.1\|31879_31987_+\|holin	putative holin-like toxin	NA	NA	NA	NA
WP_000290968.1\|32524_33766_+	recombinase family protein	A0A1X9I6J1	Streptococcus_phage	1.2e-170	69.5
WP_079254335.1\|33710_35015_+	recombinase family protein	E4ZFN9	Streptococcus_phage	1.4e-198	80.0

Anti-CRISPR protein detection

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

9. NZ_ALRT01000037

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

Anti-CRISPR protein detection

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

10. NZ_ALRT01000038

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_ALRT01000038_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_ALRT01000038_1

44454-44755

TypeII

II-A

Consensus_repeat	Method
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	CRT
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	PILER-CR
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	CRISPRCasFinder

4 spacers

csn2,cas2,cas1,cas9

The CRISPR arrays of NZ_ALRT01000038_1

>merge|NZ_ALRT01000038|1|44454-44755|CRT,PILER-CR,CRISPRCasFinder
ATGATGTCCTAGCATAATAACAGCACAGCTCTAAAACACATATCCTTTTGTTAGGTCAAAAGAAGATGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAACGGTTATATGGTCGATATGATTCTACAACATGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAACTTGATAGATTTCTTACAAAATGAACGCATTGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAACCGTAAGTCGTGCGATGAAACCATTTACTCGTGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC

>NZ_ALRT01000038|1|1|44454-44755|CRT
ATGATGTCCTAGCATAATAACAGCACAGCTCTAAAAC	ACATATCCTTTTGTTAGGTCAAAAGAAGA
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	GGTTATATGGTCGATATGATTCTACAACA
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	TTGATAGATTTCTTACAAAATGAACGCAT
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	CGTAAGTCGTGCGATGAAACCATTTACTCG
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC

>NZ_ALRT01000038|1|1|44520-44755|PILER-CR
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	GGTTATATGGTCGATATGATTCTACAACA
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	TTGATAGATTTCTTACAAAATGAACGCAT
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	CGTAAGTCGTGCGATGAAACCATTTACTCG
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC

>NZ_ALRT01000038|1|1|44520-44755|CRISPRCasFinder
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	GGTTATATGGTCGATATGATTCTACAACA
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	TTGATAGATTTCTTACAAAATGAACGCAT
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC	CGTAAGTCGTGCGATGAAACCATTTACTCG
TGTTTTGGAACCATTCGAAACAGCACAGCTCTAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_ALRT01000038.1\|WP_000438314.1\|43480_43897_-\|nucleoside-diphosphate-kinase	unknown	unknown	gnl\|CDD\|179085
NZ_ALRT01000038.1\|WP_000065321.1\|32920_34024_-\|DUF2974-domain-containing-protein	unknown	unknown	gnl\|CDD\|371412
NZ_ALRT01000038.1\|WP_000653360.1\|51216_51873_-\|TIGR01906-family-membrane-protein	unknown	unknown	gnl\|CDD\|226884
NZ_ALRT01000038.1\|WP_000146566.1\|32161_32800_+\|CatB-related-O-acetyltransferase	unknown	unknown	gnl\|CDD\|100040
NZ_ALRT01000038.1\|WP_011058334.1\|44029_44200_-\|hypothetical-protein	unknown	unknown	unknown
NZ_ALRT01000038.1\|WP_029687116.1\|38633_41252_-\|pneumococcal-type-histidine-triad-protein	unknown	unknown	gnl\|CDD\|275380
NZ_ALRT01000038.1\|WP_001241816.1\|54596_54977_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|131381
NZ_ALRT01000038.1\|WP_000122194.1\|45507_45849_-\|CRISPR-associated-endonuclease-Cas2	cas2	COG3512_cas2_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226043
NZ_ALRT01000038.1\|WP_000159234.1\|55001_55373_-\|YbgA-family-protein	unknown	unknown	gnl\|CDD\|377982
NZ_ALRT01000038.1\|WP_001019133.1\|41512_43345_-\|elongation-factor-4	unknown	unknown	gnl\|CDD\|235462
NZ_ALRT01000038.1\|WP_000180007.1\|37874_38534_-\|HD-domain-containing-protein	unknown	unknown	gnl\|CDD\|224336
NZ_ALRT01000038.1\|WP_000665410.1\|36967_37402_-\|peptide-methionine-(R)-S-oxide-reductase-MsrB	unknown	unknown	gnl\|CDD\|234692
NZ_ALRT01000038.1\|WP_000523795.1\|52633_53371_-\|acyl-ACP-thioesterase	unknown	unknown	gnl\|CDD\|366738
NZ_ALRT01000038.1\|WP_000914664.1\|53374_54505_-\|oxygen-independent-coproporphyrinogen-III-oxidase	unknown	unknown	gnl\|CDD\|236309
NZ_ALRT01000038.1\|WP_000323544.1\|51862_52633_-\|TIGR01457-family-HAD-type-hydrolase	unknown	unknown	gnl\|CDD\|319832
NZ_ALRT01000038.1\|WP_000929489.1\|45845_46715_-\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|274694
NZ_ALRT01000038.1\|WP_000590706.1\|44855_45521_-\|type-II-A-CRISPR-associated-protein-Csn2	csn2	pfam09711_csn2_CAS-II-A	gnl\|CDD\|213408
NZ_ALRT01000038.1\|WP_000621142.1\|37401_37866_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|366181
NZ_ALRT01000038.1\|WP_001040087.1\|46716_50829_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	cas9	COG3513_cas9_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|273840
NZ_ALRT01000038.1\|WP_000168898.1\|34023_36816_-\|cation-transporting-P-type-ATPase	unknown	unknown	gnl\|CDD\|223550

Protein	Function_ID	Function_description	E-value
NZ_ALRT01000038.1\|WP_000438314.1\|43480_43897_-\|nucleoside-diphosphate-kinase	gnl\|CDD\|179085	PRK00668, ndk, mulitfunctional nucleoside diphosphate kinase/apyrimidinic endonuclease/3'-; Validated.	4.64422e-78
NZ_ALRT01000038.1\|WP_000065321.1\|32920_34024_-\|DUF2974-domain-containing-protein	gnl\|CDD\|371412	pfam11187, DUF2974, Protein of unknown function (DUF2974). This bacterial family of proteins has no known function.	1.82724e-105
NZ_ALRT01000038.1\|WP_000653360.1\|51216_51873_-\|TIGR01906-family-membrane-protein	gnl\|CDD\|226884	COG4478, COG4478, Predicted membrane protein [Function unknown].	8.67363e-51
NZ_ALRT01000038.1\|WP_000146566.1\|32161_32800_+\|CatB-related-O-acetyltransferase	gnl\|CDD\|100040	cd03349, LbH_XAT, Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and streptogramin, among others. Members of this class of enzymes include Enterococcus faecium streptogramin A acetyltransferase and Pseudomonas aeruginosa chloramphenicol acetyltransferase. They contain repeated copies of a six-residue hexapeptide repeat sequence motif (X-[STAV]-X-[LIV]-[GAED]-X) and adopt a left-handed parallel beta helix (LbH) structure. The active enzyme is a trimer with CoA and substrate binding sites at the interface of two separate LbH subunits. XATs are implicated in inactivating xenobiotics leading to xenobiotic resistance in patients.	9.50556e-71
NZ_ALRT01000038.1\|WP_000621142.1\|37401_37866_-\|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.	5.91796e-19
NZ_ALRT01000038.1\|WP_029687116.1\|38633_41252_-\|pneumococcal-type-histidine-triad-protein	gnl\|CDD\|275380	sd00033, LRR_RI, leucine-rich repeats, ribonuclease inhibitor (RI)-like subfamily. A leucine-rich repeat (LRR) is a structural protein motif of 20-30 amino acids that is unusually rich in the hydrophobic amino acid leucine. The conserved eleven-residue sequence motif (LxxLxLxxN/CxL) within the LRRs corresponds to the beta-strand and adjacent loop regions, whereas the remaining parts of the repeats are variable. LRRs fold together to form a solenoid protein domain, termed leucine-rich repeat domain. Leucine-rich repeats are usually involved in protein-protein interactions.	1.31301e-21
NZ_ALRT01000038.1\|WP_001241816.1\|54596_54977_-\|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_ALRT01000038.1\|WP_000180007.1\|37874_38534_-\|HD-domain-containing-protein	gnl\|CDD\|224336	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only].	2.66997e-33
NZ_ALRT01000038.1\|WP_000159234.1\|55001_55373_-\|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.	6.08694e-28
NZ_ALRT01000038.1\|WP_001019133.1\|41512_43345_-\|elongation-factor-4	gnl\|CDD\|235462	PRK05433, PRK05433, GTP-binding protein LepA; Provisional.	0
NZ_ALRT01000038.1\|WP_000122194.1\|45507_45849_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|226043	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms].	2.38084e-52
NZ_ALRT01000038.1\|WP_000665410.1\|36967_37402_-\|peptide-methionine-(R)-S-oxide-reductase-MsrB	gnl\|CDD\|234692	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB.	6.40832e-86
NZ_ALRT01000038.1\|WP_000523795.1\|52633_53371_-\|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_ALRT01000038.1\|WP_000914664.1\|53374_54505_-\|oxygen-independent-coproporphyrinogen-III-oxidase	gnl\|CDD\|236309	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase.	0
NZ_ALRT01000038.1\|WP_000323544.1\|51862_52633_-\|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_ALRT01000038.1\|WP_000590706.1\|44855_45521_-\|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_ALRT01000038.1\|WP_000929489.1\|45845_46715_-\|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.	2.54315e-139
NZ_ALRT01000038.1\|WP_001040087.1\|46716_50829_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	gnl\|CDD\|273840	TIGR01865, conserved_hypothetical_protein, CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.	0
NZ_ALRT01000038.1\|WP_000168898.1\|34023_36816_-\|cation-transporting-P-type-ATPase	gnl\|CDD\|223550	COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and metabolism].	0

>NZ_ALRT01000038.1|WP_011058334.1|44029_44200_-|hypothetical-protein
MKGYNSNLMVKGLGCSTLYLIISLTALVLLVIAGVFFVINTCKLTRKAVENLSIIN
>NZ_ALRT01000038.1|WP_000438314.1|43480_43897_-|nucleoside-diphosphate-kinase
MEQTFFMIKPDGVKRGFIGEVISRIERRGFSIDRLEVRYADADILKRHYAELTDRPFFPTLVDYMTSGPVIIGVISGEEVISTWRTMMGSTNPKDALPGTIRGDFAQAPSPNQATCNIVHGSDSPESATREIAIWFNN
>NZ_ALRT01000038.1|WP_001019133.1|41512_43345_-|elongation-factor-4
MNIEDLKKRQEKIRNFSIIAHIDHGKSTLADRILEKTETVSSREMQAQLLDSMDLERERGITIKLNAIELNYTAKDGETYIFHLIDTPGHVDFTYEVSRSLAACEGAILVVDAAQGIEAQTLANVYLALDNDLEILPVINKIDLPAADPERVRAEVEDVIGLDASEAVLASAKAGIGIEEILEQIVEKVPAPTGEVDAPLQALIFDSVYDAYRGVILQVRIVNGMVKPGDKIQMMSNGKTFDVTEVGIFTPKAVGRDFLATGDVGYIAASIKTVADTRVGDTITLANNPAIEPLHGYKQMNPMVFAGLYPIESNKYNDLREALEKLQLNDASLQFEPETSQALGFGFRCGFLGLLHMDVIQERLEREFNIDLIMTAPSVVYHVNTTDGEMLEVSNPSEFPDPTRVDSIEEPYVKAQIMVPQEFVGAVMELAQRKRGDFVTMDYIDDNRVNVIYQIPLAEIVFDFFDKLKSSTRGYASFDYEISEYRRSQLVKMDILLNGDKVDALSFIVHKEFAYERGKLIVDKLKKIIPRQQFEVPIQAAIGQKIVARSDIKALRKNVLAKCYGGDVSRKRKLLEKQKAGKKRMKAIGSVEVPQEAFLSVLSMDDDDKK
>NZ_ALRT01000038.1|WP_029687116.1|38633_41252_-|pneumococcal-type-histidine-triad-protein
MIALAGLVLSCHFALTACHTQEHKNSHHIKTKQVAKKKANKKKVSVKESHKKRKGVAGVDFPTDDGFLLTKDSKILSHTDSGIVVAHGNHSHFIFYSDLKGSKFSYLIPNANTKTNKNQAVRNFKAGAVAVNTLNDGYVFNPADIVSEDANGYVVRHGDHFHYIPKASLSQQKQVQASRAVSRLGNQSNSHYRVNSSKIAGLHYPTSNGFLFNGRGIKGTTPTGILVEHHNHLHFISFADLRKGGWGSIADRYQPQKKADSKKQSPSSKKPRTENTLPKDIKDKLAYLARELHLDISRIRVLKTLNGEIGFEYPHDDHTHVIMAKDIDLSKPIPNPHHDDEDHHKGHHHDESDHKHEEHEHTKSNKLSDEDQKKLIYLAEKLGLNPNQIEVLTSEDGSIIFKYPHDDHSHTIASKDIEIGKPIPDGHHDHSHAKDKVGMATLKQIGFDDEIIQDILHADAPTPFPSNETNPEKMRQWLATVTKINIGQRTNPFQRFGLSLMPNIEVLGIGFTPINDMTPVLQFKKLKQLWMTNTGITDYSFLDKMPLLEGLDISQNGIKDLSFLTKYKQLSLIAAANNGITSLKPLAELPNLQFLVLSHNNISDLTPLSNLTKLQELHLDHNNVKNLSALSGKKDLKVLDLSNNKSADLSTLKTTSLETLLLNETNTSNLSFLKQNPKVSNLTINNVKLASLDGIEESDEIVKVEAEGNQIKSLVLKNKQGLLKFLNVTNNQLTSLEGVNNYTSLETLSVSKNKLESLDIKTPNKTVTNLDFSHNNVPTSQLKLNEKNIPEAVAKNFPAVVEGSMVGNGSLAEKAAMASKEDKQVSDNTNHQKNTEKSAQANADSKKENPKTHDEHHDHEETDHAHVGHHHH
>NZ_ALRT01000038.1|WP_000180007.1|37874_38534_-|HD-domain-containing-protein
MTMVKREDVILNATENMVHHKLKNDPSGHDWFHIVRVRNLAVELAHKEGANTFICQMAALLHDIIDDKICQDSKQASYELTQWLYSQDLAIAEVEHILDILENISFKAGTGLTMKTLEGQIVQDADRLDAMGAIGIARTMAYSGSKGRLIHDPNLKPRENLTLEEYRNGQDTAIMHFYEKLLKLKDLMNTKQGKMLAQKRHDFLELYLAEFYAEWNGKR
>NZ_ALRT01000038.1|WP_000621142.1|37401_37866_-|GNAT-family-N-acetyltransferase
MIRRAKEKDLPDIAELLKQILMLHHEVRPDIFHTRGSKFSKEQLKEMLIDESKPIFVYESDEGKVVAHLFLQLQEKRDLPRKSFKTLYIDDLCIDEEVRGQQIGQKLMDFARQYAKKHGCYNITLNVWNDNQRAVSFYEKLGFKPQQTQMEEIL
>NZ_ALRT01000038.1|WP_000665410.1|36967_37402_-|peptide-methionine-(R)-S-oxide-reductase-MsrB
MKETQEELRQRIGHTAYQVTQNSATEHAFTGKYDDFFEEGIYVDIVSGEVLFSSLDKFQSGCGWPAFSKPIENRMVTNHQDHSHGMHRIEVRSRQADSHLGHVFNDGPVDAGGLRYCINSAALDFIPYDQMAKRGYGDYLSLFD
>NZ_ALRT01000038.1|WP_000168898.1|34023_36816_-|cation-transporting-P-type-ATPase
MASTNNVSDTNTRFAKEELEEVFEELGTTQGGLSDEEVAVRQKKYGLNLLSEVKQESIILLFLKNFTSLMAILLWVGGFVAIVSNSLELGLAIWMVNVINGIFSFIQEYRASQATQALEKMLPSYSRVLRKGSEEKILSEQLVPGDIVLIEEGDRISADGRLIKTTDLQVNQSALTGESNPIYKDSNVENDQSKTLIECDNMVFAGTTVSSGSATMVVTAIGMQTQFGQIADLTQGMKSEKSPLQRELDRLTKQISIISITVGIIFFLAATFFVKEPVSKSFIFALGMIVAFIPEGLLPTVTLSLAMAVQRMAKEHALVKKLSSVETLGATSVICSDKTGTLTQNEMTVNHLWQNGKSYQVTGLGYAPEGQILFEGDNICFGNSDRGDLEKLIRFAHLCSNAQVLPPNDDRSTYTVLGDPTEACLNVLLEKSGINIQENRKFAPRLKELPFDSVRKRMTTIHSLGGDEKDKKISITKGAPKEILDLSDYVLSDGKVIPLNKEERNKIQLANDTFAKDGLRVLAVSYCDIEGFSKEQWTQENLEQHMVFIGLIAMSDPPREGVREAIDKCHAASIRIIMVTGDYGLTALSIAKNIGIIRNDDAKVISGLELSEMTDSQLKKELSGEVVFARVAPEQKYRVVTILQEMGEVVAVTGDGVNDAPALKKSDIGVAMGVTGTDVAKESADMILTDDHFASIVHAVEEGRAVYQNIKKFLTYIFNSNTPEAVPSAFFLFSKGFIPLPLTVMQILAVDLGTDMLPALGLGVEPPETDVMNRPPRRLTDRLLDKGLLIKSFLWYGTIESVLAMGGFFWAHYLRYGNFTFFVANGIPYREATTMTLGAIIFSQIGMVMNSRTSYQSIKALSIFGNKLINFGIIMEILAFLVLVYVPLFHNLFNTASLGLSHWLYLISCPFIMIGLDEVRKLFSSRKNKR
>NZ_ALRT01000038.1|WP_000065321.1|32920_34024_-|DUF2974-domain-containing-protein
MSNIITYLKNNSNLTFDELALNDVDILCLNEFGYISFEKLINTTEMKSVLVCELYHEYLQTMAKSYSFMFTSQRHDLCQLMMTSKRFKNLTLSYYRAEISLEFEKQFAAMVFTIPNINYHQVVFRGTDANLIGWKEDFKLTYMREISAHRSAIKYLNTILPYFDKVVLSGHSKGGNLALYAAMFTKPDLKAKIDLIWLIDSPGLQKTLLPTTEYKTTKQKCIRLLPEESIVGMMLYSDIEPLIISSNARGILQHDVTTWEIQEPAILKTGTGLSLKSICFEKTFQQWMAELKSQERKLFFDLLFDSFLSSGVSSLDDFNLASRAKMMKAFHSFRELDDDKKRLFNKSLKLLVTIFWGAYHDNSRETK
>NZ_ALRT01000038.1|WP_000146566.1|32161_32800_+|CatB-related-O-acetyltransferase
MASILKKHLEKRLELKNDPMRTDMSTGASYPKYGFSVGKYTYGYQQFFYEGVNLKEIGAFCSIAQNVTITGLNHPTDHITTNPFIYYKSRGFINEDRADLIDEKKNGKVIIGNDVWIGTNVTILPSVTIGNGAIIGAGSVITKDIPDYGVVAGTPAKIIKYRFSEEEITLLNASQWWNWSDEAIKEHISEFSDKKEFFNTLKSISENKNHKL
>NZ_ALRT01000038.1|WP_000590706.1|44855_45521_-|type-II-A-CRISPR-associated-protein-Csn2
MIKINFPILDEPLVLSNATILTIEDVSVYSSLVKHFYQYDVDEHLKLFDDKQKSLKATELMLVTDILGYDVNSAPILKLIHGDLENQFNEKPEVKSMVEKLAATITELIAFECLENELDLEYDEITILELIKALGVKIETQSDTIFEKCFEIIQVYHYLTKKNLLVFVNSGAYLTKDEVIKLCEYINLMQKSVLFLEPRRLYDLPQYVIDKDYFLIGENMV
>NZ_ALRT01000038.1|WP_000122194.1|45507_45849_-|CRISPR-associated-endonuclease-Cas2
MSYRYMRMILMFDMPTETAEERKAYRKFRKFLLSEGFIMHQFSVYSKLLLNNTANNAMIGRLKVNNPKKGNITLLTVTEKQFARMVYLHGERNTSVANSDSRLVFLGDSYDQD
>NZ_ALRT01000038.1|WP_000929489.1|45845_46715_-|type-II-CRISPR-associated-endonuclease-Cas1
MAGWRTVVVNTHSKLSYKNNHLIFKDSYQTEMIHLSEIDILIMETTDIVLSTMLIKRLVDENILVIFCDDKRLPTAMLMPYYARHDSSLQLSRQMSWIEDVKADVWTSIIAQKILNQSFYLGECSFFEKSQSIMNLYHDLEPFDPSNREGHAARIYFNTLFGNDFSREQDNPINAGLDYGYSLLLSMFAREVVKCGCMTQFGLKHANQFNQFNLASDIMEPFRPIVDRIIYENRQSDFVKMKRELFSMFSETYSYNGKEMYLSNIVSDYTKKVIKSLNSDGNGIPEFRI
>NZ_ALRT01000038.1|WP_001040087.1|46716_50829_-|type-II-CRISPR-RNA-guided-endonuclease-Cas9
MNKPYSIGLDIGTNSVGWSIITDDYKVPAKKMRVLGNTDKEYIKKNLIGALLFDGGNTAADRRLKRTARRRYTRRRNRILYLQEIFAEEMSKVDDSFFHRLEDSFLVEEDKRGSKYPIFATLQEEKDYHEKFSTIYHLRKELADKKEKADLRLIYIALAHIIKFRGHFLIEDDSFDVRNTDISKQYQDFLEIFNTTFENNDLLSQNVDVEAILTDKISKSAKKDRILAQYPNQKSTGIFAEFLKLIVGNQADFKKYFNLEDKTPLQFAKDSYDEDLENLLGQIGDEFADLFSAAKKLYDSVLLSGILTVIDLSTKAPLSASMIQRYDEHREDLKQLKQFVKASLPEKYQEIFADSSKDGYAGYIEGKTNQEAFYKYLSKLLTKQEDSENFLEKIKNEDFLRKQRTFDNGSIPHQVHLTELKAIIRRQSEYYPFLKENQDRIEKILTFRIPYYIGPLAREKSDFAWMTRKTDDSIRPWNFEDLVDKEKSAEAFIHRMTNNDFYLPEEKVLPKHSLIYEKFTVYNELTKVRYKNEQGETYFFDSNIKQEIFDGVFKEHRKVSKKKLLDFLAKEYEEFRIVDVIGLDKENKAFNASLGTYHDLEKILDKDFLDNPDNESILEDIVQTLTLFEDREMIKKRLENYKDLFTESQLKKLYRRHYTGWGRLSAKLINGIRDKESQKTILDYLIDDGRSNRNFMQLINDDGLSFKSIISKAQAGSHSDNLKEVVGELAGSPAIKKGILQSLKIVDELVKVMGYEPEQIVVEMARENQTTNQGRRNSRQRYKLLDDGVKNLASDLNGNILKEYPTDNQALQNERLFLYYLQNGRDMYTGEALDIDNLSQYDIDHIIPQAFIKDDSIDNRVLVSSAKNRGKSDDVPSLEIVKDCKVFWKKLLDAKLMSQRKYDNLTKAERGGLTSDDKARFIQRQLVETRQITKHVARILDERFNNELDSKGRRIRKVKIVTLKSNLVSNFRKEFGFYKIREVNNYHHAHDAYLNAVVAKAILTKYPQLEPEFVYGDYPKYNSYKTRKSATEKLFFYSNIMNFFKTKVTLADGTVVVKDDIEVNNDTGEIVWDKKKHFATVRKVLSYPQNNIVKKTEIQTGGFSKESILAHGNSDKLIPRKTKDIYLDPKKYGGFDSPIVAYSVLVVADIKKGKAQKLKTVTELLGITIMERSRFEKNPSAFLESKGYLNIRADKLIILPKYSLFELENGRRRLLASAGELQKGNELALPTQFMKFLYLASRYNESKGKPEEIEKKQEFVNQHVSYFDDILQLINDFSKRVILADANLEKINKLYQDNKENISVDELANNIINLFTFTSLGAPAAFKFFDKIVDRKRYTSTKEVLNSTLIHQSITGLYETRIDLGKLGED
>NZ_ALRT01000038.1|WP_000653360.1|51216_51873_-|TIGR01906-family-membrane-protein
MKDKLLVVLTWIWIISLATLATIYIAWLIYPIEIQFLKLEKVVYLKAETIYYNFNKLMIYLTHPFISDLNMPSFPSSEDGLKHFADVKYLFTLAHGLFVILTFPVIYFLRSGWKQKSIFLYEGFFKIAIMLPIFIVVCAFLLGFDQFFTLFHEVLFPGDSTWQFNPLTDPVIWILPETFFLHCFIIFLLIYETITIILLIIGRKHLKLRKYKNKMQAL
>NZ_ALRT01000038.1|WP_000323544.1|51862_52633_-|TIGR01457-family-HAD-type-hydrolase
MAYKGYLIDLDGTIYKGKSRIPAGERFIERLQEKGIPYMLVTNNTTRTPESVQEMLRGFNVETPLETIYTATMATVDYMNDMNRGKTAYVIGEEGLKKAIADAGYVEDTKNPAYVVVGLDWNVTYDKLATATLAIQNGALFIGTNPDLNIPTERGLLPGAGSLNALLEAATRIKPVFIGKPNAIIMNKALEILNIPRNQAVMVGDNYLTDIMAGINNDIDTLLVTTGFTTVEEVPDLPIQPSYVLASLDEWTFNEG
>NZ_ALRT01000038.1|WP_000523795.1|52633_53371_-|acyl-ACP-thioesterase
MGLLYRETYEVPFYESDTNHYMKLPQLLALALQISAKQSLKLGIGDDIVFKRYGLVWVVTDYIIDIERLPKHAEKIVIETEAKAHNKLLCYRYFYIYGEDGQKIITISSAFVLMDFKTRKIHPVLDDITSIYQSQRIKKVIRGPKYHPIGDSKVKQYHVRYFDLDMNGHVNNSKYLEWMYDVLDLDFLSSHIPKKIDLKYIKEIQYGTDIKSHWYQDGLVTRHDIIGGDAIHAQARIEWQEKKED
>NZ_ALRT01000038.1|WP_000914664.1|53374_54505_-|oxygen-independent-coproporphyrinogen-III-oxidase
MLKKPTSAYVHIPFCTQICYYCDFSKVFIKNQPVDAYLQALIREFRSYDITELRTLYIGGGTPTSISAVQLDYLLTELSRDLNLNTLEEFTIEANPGDLTVDKIEVLQKSAVNRVSLGVQTFNDKHLKRIGRSHNEAQIYSTIDALKTAGFQNISIDLIYALPGQTMDDVRSNVAKALSLNIPHLSLYSLILEHHTVFMNKMRRGKLHLPTEDLEAEMFEYIISEMERNGFEHYEISNFTKPGFESRHNLMYWDNVEYYGVGAGASGYLDGIRYRNRGPIQHYLKGVSEGNARLSEEVLSKNEMMEEELFLGLRKKEGVSIGKFEQKFGTSFEKRYGQIVQELQSDGLLKENNGFIQMTKKGLFLGDTVAEKFIVE
>NZ_ALRT01000038.1|WP_001241816.1|54596_54977_-|hypothetical-protein
MRLWHQDIIELLPRQQLLGQHRECCALRGNGWGRKHETVDYVFRYSPYRLFAYHQLVMEEMMERGYRVSKEWLIAEYRGMKCPRYDTLNPVDLETPIYPEHNQDYLQECLWNLKAKGIDLPINKIK
>NZ_ALRT01000038.1|WP_000159234.1|55001_55373_-|YbgA-family-protein
MTKEAELLWAKHKYLVLSKSQKIYLDIRQTLKSPNCTVLDVQSLIDQAVLLEESPSQVTNAYMHIWGYFKNKAERQEKEEFLTLLEKYRKTGYQRRKLLAFLKQLLAKYPNSYLQNSSIFEEE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	NZ_ALRT01000037.1	24910-24938	0	1.0

1. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to position: 24910-24938, mismatch: 0, identity: 1.0

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
ttgatagatttcttacaaaatgaacgcat	Protospacer
*****************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	MK308676	Vibrio phage vB_VmeM-Yong MS31, complete genome	172843-172871	7	0.759
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	MK308675	Vibrio phage vB_VmeM-Yong XC32, complete genome	172842-172870	7	0.759
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	MK308677	Vibrio phage vB_VmeM-Yong MS32, complete genome	172843-172871	7	0.759
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	MK308674	Vibrio phage vB_VmeM-Yong XC31, complete genome	172842-172870	7	0.759
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	NZ_CP053657	Bacillus cereus strain CTMA_1571 plasmid p.1, complete sequence	429648-429676	7	0.759
NZ_ALRT01000038_1	1.3\|44623\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44623-44651	29	MN855763	Myoviridae sp. isolate 210, complete genome	13489-13517	7	0.759
NZ_ALRT01000038_1	1.2\|44557\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44557-44585	29	NZ_CP017657	Acinetobacter baumannii strain KAB08 plasmid unnamed, complete sequence	56273-56301	8	0.724
NZ_ALRT01000038_1	1.2\|44557\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44557-44585	29	NZ_CP017649	Acinetobacter baumannii strain KAB04 plasmid unnamed, complete sequence	58336-58364	8	0.724
NZ_ALRT01000038_1	1.2\|44557\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44557-44585	29	NZ_CP050915	Acinetobacter baumannii strain DT-Ab007 plasmid unnamed1, complete sequence	22391-22419	8	0.724
NZ_ALRT01000038_1	1.2\|44557\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44557-44585	29	NZ_CP020580	Acinetobacter baumannii strain SSMA17 plasmid pSSMA17_1, complete sequence	55464-55492	8	0.724
NZ_ALRT01000038_1	1.2\|44557\|29\|NZ_ALRT01000038\|CRT,PILER-CR,CRISPRCasFinder	44557-44585	29	NZ_CP020582	Acinetobacter baumannii strain JBA13 plasmid pJBA13_1, complete sequence	16314-16342	8	0.724

1. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to MK308676 (Vibrio phage vB_VmeM-Yong MS31, complete genome) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
cgtccaaatttcttagaaaatgaacgcat	Protospacer
.   .*.******** *************

2. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to MK308675 (Vibrio phage vB_VmeM-Yong XC32, complete genome) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
cgtccaaatttcttagaaaatgaacgcat	Protospacer
.   .*.******** *************

3. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to MK308677 (Vibrio phage vB_VmeM-Yong MS32, complete genome) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
cgtccaaatttcttagaaaatgaacgcat	Protospacer
.   .*.******** *************

4. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to MK308674 (Vibrio phage vB_VmeM-Yong XC31, complete genome) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
cgtccaaatttcttagaaaatgaacgcat	Protospacer
.   .*.******** *************

5. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP053657 (Bacillus cereus strain CTMA_1571 plasmid p.1, complete sequence) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
ttgatagatttcttgcaaaatacgtactt	Protospacer
**************.******. ...* *

6. spacer 1.3|44623|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to MN855763 (Myoviridae sp. isolate 210, complete genome) position: , mismatch: 7, identity: 0.759

ttgatagatttcttacaaaatgaacgcat	CRISPR spacer
attttgtttttctttcaaaatgaacgcat	Protospacer
 *  *.  ****** **************

7. spacer 1.2|44557|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP017657 (Acinetobacter baumannii strain KAB08 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.724

ggttatatggtcgatatgattctacaaca	CRISPR spacer
aaatgcttggtcgatttgattctacaacc	Protospacer
.. *.. ******** ************

8. spacer 1.2|44557|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP017649 (Acinetobacter baumannii strain KAB04 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.724

ggttatatggtcgatatgattctacaaca	CRISPR spacer
aaatgcttggtcgatttgattctacaacc	Protospacer
.. *.. ******** ************

9. spacer 1.2|44557|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP050915 (Acinetobacter baumannii strain DT-Ab007 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.724

ggttatatggtcgatatgattctacaaca	CRISPR spacer
aaatgcttggtcgatttgattctacaacc	Protospacer
.. *.. ******** ************

10. spacer 1.2|44557|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP020580 (Acinetobacter baumannii strain SSMA17 plasmid pSSMA17_1, complete sequence) position: , mismatch: 8, identity: 0.724

ggttatatggtcgatatgattctacaaca	CRISPR spacer
aaatgcttggtcgatttgattctacaacc	Protospacer
.. *.. ******** ************

11. spacer 1.2|44557|29|NZ_ALRT01000038|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP020582 (Acinetobacter baumannii strain JBA13 plasmid pJBA13_1, complete sequence) position: , mismatch: 8, identity: 0.724

ggttatatggtcgatatgattctacaaca	CRISPR spacer
aaatgcttggtcgatttgattctacaacc	Protospacer
.. *.. ******** ************

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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

11. NZ_ALRT01000014

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

508 : 8998

Streptococcus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000715592.1\|508_1144_+	dTMP kinase	M1PSC7	Streptococcus_phage	2.8e-67	61.1
WP_000364565.1\|1163_2027_+	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	7.3e-74	49.7
WP_000358198.1\|2056_2383_+	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	3.2e-30	61.1
WP_001866320.1\|2388_3252_+	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	3.7e-110	70.4
WP_011058366.1\|3227_3389_-	hypothetical protein	NA	NA	NA	NA
WP_011058365.1\|3373_3478_+	hypothetical protein	NA	NA	NA	NA
WP_000603277.1\|3521_4157_-	copper homeostasis protein CutC	NA	NA	NA	NA
WP_001167085.1\|5449_5998_+	acetyltransferase	M1PSC3	Streptococcus_phage	1.1e-54	58.4
WP_000232156.1\|6060_7242_+	phosphoglycerate dehydrogenase	M1NSB9	Streptococcus_phage	7.0e-168	75.6
WP_000966772.1\|7296_7773_+	methylated-DNA--[protein]-cysteine S-methyltransferase	M1PFU9	Streptococcus_phage	7.1e-39	50.9
WP_000287944.1\|7774_8131_+	arsenate reductase family protein	M1PLC0	Streptococcus_phage	1.5e-41	71.8
WP_000767484.1\|8170_8998_-	exodeoxyribonuclease III	M1PSC0	Streptococcus_phage	4.3e-124	78.0

Anti-CRISPR protein detection

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