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
NC_003134	Yersinia pestis CO92 plasmid pMT1, complete sequence	0 crisprs	NA	0	0	1	0
NC_003132	Yersinia pestis CO92 plasmid pPCP1, complete sequence	0 crisprs	NA	0	0	0	0
NC_003131	Yersinia pestis CO92 plasmid pCD1, complete sequence	0 crisprs	NA	0	0	1	0
NC_003143	Yersinia pestis CO92, complete genome	5 crisprs	DEDDh,DinG,cas3,cas6f,cas7f,cas5f,cas8f,cas3f,cas1,csa3	4	9	18	1

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

86 : 62789

Salmonella_phage(85.71%)

tail,transposase,terminase

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_000255944.1\|86_1109_+\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_001297096.1\|1108_1888_+	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_002211769.1\|2021_2630_-\|tail	tail fiber assembly protein	K7PMH7	Enterobacteria_phage	4.8e-64	62.2
WP_002211770.1\|2931_5820_-\|tail	phage tail protein	J9Q6E3	Salmonella_phage	4.5e-11	33.1
WP_002211771.1\|5900_6479_-	DUF4376 domain-containing protein	Q9LA61	Enterobacterial_phage	3.4e-27	38.8
WP_002214118.1\|6535_11167_-	DUF1983 domain-containing protein	J9Q713	Salmonella_phage	0.0e+00	88.6
WP_002211773.1\|11188_11776_-\|tail	tail assembly protein	J9Q7F8	Salmonella_phage	5.1e-103	92.8
WP_002211774.1\|11763_12561_-	C40 family peptidase	J9Q7R4	Salmonella_phage	1.4e-156	96.2
WP_002211775.1\|12553_13252_-\|tail	phage minor tail protein L	J9Q7Y5	Salmonella_phage	7.1e-136	99.1
WP_000440566.1\|13341_13677_-\|tail	phage tail protein	J9Q6E1	Salmonella_phage	5.7e-59	97.3
WP_002211776.1\|13718_18296_-	tape measure protein	J9Q712	Salmonella_phage	0.0e+00	90.5
WP_000952684.1\|18303_18528_-	hypothetical protein	J9Q7F7	Salmonella_phage	4.2e-34	100.0
WP_000163862.1\|18653_18971_-	hypothetical protein	J9Q7R3	Salmonella_phage	6.0e-50	98.1
WP_002211778.1\|19030_19777_-	Ig domain-containing protein	J9Q7Y4	Salmonella_phage	5.2e-129	98.8
WP_002211779.1\|19851_20235_-	hypothetical protein	J9Q6D8	Salmonella_phage	1.1e-66	98.4
WP_002211780.1\|20236_20710_-	hypothetical protein	J9Q711	Salmonella_phage	8.9e-82	99.4
WP_001027662.1\|20700_21045_-	hypothetical protein	J9Q7F6	Salmonella_phage	1.9e-57	100.0
WP_002211781.1\|21142_21976_-	hypothetical protein	J9Q7R2	Salmonella_phage	2.9e-152	99.6
WP_002211782.1\|21975_22410_-	hypothetical protein	J9Q7Y3	Salmonella_phage	3.1e-73	99.3
WP_002211783.1\|22453_23116_-	Ig domain-containing protein	J9Q6D6	Salmonella_phage	8.5e-107	97.2
WP_002211784.1\|23190_24066_-	hypothetical protein	J9Q710	Salmonella_phage	8.5e-163	99.7
WP_002211785.1\|24092_24926_-	hypothetical protein	J9Q7F4	Salmonella_phage	5.8e-137	91.3
WP_002211786.1\|24948_26523_-	hypothetical protein	J9Q7R1	Salmonella_phage	2.4e-301	99.2
WP_002211787.1\|26556_27813_-\|terminase	terminase	J9Q7Y2	Salmonella_phage	1.8e-251	100.0
WP_002211788.1\|27815_28457_-	hypothetical protein	J9Q6D4	Salmonella_phage	1.2e-108	98.1
WP_000176291.1\|28652_28919_-	hypothetical protein	J9Q757	Salmonella_phage	1.3e-42	100.0
WP_002211789.1\|28928_29819_-	hypothetical protein	J9Q7I6	Salmonella_phage	6.2e-169	99.7
WP_002211790.1\|29824_30079_-	hypothetical protein	J9Q7U0	Salmonella_phage	2.0e-40	97.6
WP_002211791.1\|30071_30710_-	ATP-binding cassette domain-containing protein	J9Q807	Salmonella_phage	4.7e-110	98.1
WP_002211792.1\|30706_31375_-	ParB N-terminal domain-containing protein	J9Q6L1	Salmonella_phage	9.5e-114	98.2
WP_002228791.1\|31374_32073_-	ParB N-terminal domain-containing protein	J9Q756	Salmonella_phage	9.6e-125	98.7
WP_002211794.1\|32137_33697_+	DEAD/DEAH box helicase	J9Q7I4	Salmonella_phage	1.1e-293	99.0
WP_002214131.1\|33699_33978_+	hypothetical protein	J9Q7T9	Salmonella_phage	4.4e-41	97.8
WP_002211796.1\|34037_34460_+	hypothetical protein	J9Q806	Salmonella_phage	4.1e-62	85.0
WP_002214134.1\|34464_34992_+	transcriptional regulator	J9Q6L0	Salmonella_phage	6.4e-81	98.0
WP_002211799.1\|35313_35964_+	hypothetical protein	J9Q754	Salmonella_phage	4.1e-114	99.5
WP_002214137.1\|36048_36276_+	hypothetical protein	NA	NA	NA	NA
WP_002211801.1\|36914_37397_-	hypothetical protein	J9Q805	Salmonella_phage	5.1e-85	94.4
WP_002211802.1\|37602_37884_-	hypothetical protein	J9Q753	Salmonella_phage	6.1e-46	93.5
WP_002213759.1\|38083_38542_-\|transposase	IS200/IS605-like element IS1541A family transposase	D9CGB6	Hyperthermophilic_Archaeal_Virus_2	5.0e-13	35.3
WP_002214145.1\|38750_39320_-	hypothetical protein	J9Q7Z7	Salmonella_phage	5.8e-104	100.0
WP_002213303.1\|39332_40079_-	hypothetical protein	J9Q6J5	Salmonella_phage	4.1e-134	96.4
WP_002214148.1\|40068_41985_-	AAA family ATPase	J9Q741	Salmonella_phage	0.0e+00	98.6
WP_002213300.1\|42214_43300_-	metallophosphoesterase	J9Q7S9	Salmonella_phage	7.7e-206	98.6
WP_002213298.1\|43715_44738_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002214160.1\|45097_45742_-	hypothetical protein	J9Q739	Salmonella_phage	1.8e-122	98.1
WP_002214164.1\|46486_47551_+	replication protein RepA	J9Q7H0	Salmonella_phage	2.4e-188	98.6
WP_002222711.1\|48119_48332_-	hypothetical protein	J9Q7S8	Salmonella_phage	6.8e-34	95.7
WP_002227818.1\|48331_48667_-	hypothetical protein	J9Q7Z5	Salmonella_phage	5.2e-52	91.0
WP_002228796.1\|48663_48843_-	hypothetical protein	J9Q6J1	Salmonella_phage	5.8e-18	86.4
WP_002228797.1\|48883_49159_-	hypothetical protein	J9Q738	Salmonella_phage	1.7e-45	95.6
WP_002222869.1\|49226_49637_-	hypothetical protein	J9Q7G9	Salmonella_phage	4.1e-75	97.8
WP_002222868.1\|49620_49992_-	DUF2591 domain-containing protein	J9Q7S7	Salmonella_phage	4.0e-61	87.8
WP_002222866.1\|50145_50976_-	hypothetical protein	J9Q7Z4	Salmonella_phage	9.3e-127	98.6
WP_002213439.1\|50979_51180_-	hypothetical protein	J9Q6J0	Salmonella_phage	1.1e-25	97.0
WP_000920226.1\|52349_52616_-	hypothetical protein	J9Q7G8	Salmonella_phage	1.6e-40	100.0
WP_002225551.1\|52615_53560_-	exonuclease	J9Q7S6	Salmonella_phage	1.3e-180	99.0
WP_002213132.1\|53620_54649_-	hypothetical protein	J9Q7Z3	Salmonella_phage	1.3e-165	98.5
WP_002213135.1\|54768_55200_-	hypothetical protein	J9Q6I8	Salmonella_phage	2.6e-72	98.6
WP_002215095.1\|55420_55672_+	hypothetical protein	NA	NA	NA	NA
WP_002213141.1\|55744_56308_+	DNA-binding protein	J9Q7G7	Salmonella_phage	2.2e-63	64.6
WP_002425587.1\|56337_56763_-	hypothetical protein	J9Q7S4	Salmonella_phage	7.5e-72	100.0
WP_001297096.1\|57332_58112_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|58111_59134_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002211744.1\|59257_61267_-	ParB/RepB/Spo0J family partition protein	G8DH78	Emiliania_huxleyi_virus	7.7e-26	30.3
WP_002211745.1\|61339_61570_-	DUF905 domain-containing protein	NA	NA	NA	NA
WP_002211746.1\|62282_62789_-	antirestriction protein ArdA	A0A1I9S7Y0	Rhodococcus_phage	1.1e-08	29.5

Anti-CRISPR protein detection

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

2. NC_003131

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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

12609 : 65166

Wolbachia_phage(33.33%)

protease,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002213006.1\|12609_13578_+\|protease	T3SS effector cysteine protease YopT	NA	NA	NA	NA
WP_002213004.1\|13577_13976_+	type III secretion system chaperone SycT	NA	NA	NA	NA
WP_002222515.1\|14680_15100_+	hypothetical protein	NA	NA	NA	NA
WP_116442925.1\|15848_16094_+\|transposase	transposase	NA	NA	NA	NA
WP_002229779.1\|16335_17565_-	type III secretion system effector YopM	NA	NA	NA	NA
WP_002229781.1\|17958_18168_-	hypothetical protein	NA	NA	NA	NA
WP_002212987.1\|19293_20214_-	type III secretion system translocon subunit YopD	NA	NA	NA	NA
WP_002212985.1\|20232_21438_-	type III secretion system translocon subunit YopB	NA	NA	NA	NA
WP_002222758.1\|21415_21922_-	type III secretion system chaperone SycD/LcrH	NA	NA	NA	NA
WP_002212981.1\|21934_22915_-	type III secretion system needle tip protein LcrV	NA	NA	NA	NA
WP_002212973.1\|22916_23204_-	type III secretion system chaperone LcrG	NA	NA	NA	NA
WP_002220918.1\|23245_23686_-	type III secretion system chaperone LcrR	NA	NA	NA	NA
WP_002212971.1\|23682_25797_-	SctV family type III secretion system export apparatus subunit LcrD	NA	NA	NA	NA
WP_002229791.1\|25783_26128_-	type III secretion system chaperone YscY	NA	NA	NA	NA
WP_002212969.1\|26124_26493_-	type III secretion system protein YscX	NA	NA	NA	NA
WP_002229794.1\|26489_26861_-	type III secretion chaperone SycN	NA	NA	NA	NA
WP_002212965.1\|26847_27126_-	type III secretion system gatekeeper subunit TyeA	NA	NA	NA	NA
WP_002212958.1\|27106_27988_-	SctW family type III secretion system gatekeeper subunit YopN	NA	NA	NA	NA
WP_002212955.1\|28185_29505_+	SctN family type III secretion system ATPase YscN	NA	NA	NA	NA
WP_002212952.1\|29501_29966_+	type III secretion system central stalk protein YscO	NA	NA	NA	NA
WP_002212950.1\|29965_31333_+	type III secretion system needle length determinant YscP	NA	NA	NA	NA
WP_002212948.1\|31329_32253_+	SctQ family type III secretion system cytoplasmic ring protein YscQ	NA	NA	NA	NA
WP_002212947.1\|32249_32903_+	SctR family type III secretion system export apparatus subunit YscR	NA	NA	NA	NA
WP_002212945.1\|32904_33171_+	SctS family type III secretion system export apparatus subunit YscS	NA	NA	NA	NA
WP_002212938.1\|33167_33953_+	SctT family type III secretion system export apparatus subunit YscT	NA	NA	NA	NA
WP_002212936.1\|33952_35017_+	type III secretion system export apparatus switch protein YscU	NA	NA	NA	NA
WP_002222527.1\|35592_35988_+	type III secretion system pilotin YscW	NA	NA	NA	NA
WP_002212931.1\|36111_36927_+	virulence regulon transcriptional activator VirF	NA	NA	NA	NA
WP_002229797.1\|37005_37104_+	type III secretion system protein YscA	NA	NA	NA	NA
WP_002212925.1\|37329_37743_+	type III secretion system chaperone YscB	NA	NA	NA	NA
WP_002212923.1\|37748_39572_+	SctC family type III secretion system outer membrane ring subunit YscC	NA	NA	NA	NA
WP_002212919.1\|39568_40828_+	SctD family type III secretion system inner membrane ring subunit YscD	NA	NA	NA	NA
WP_002212917.1\|40824_41025_+	type III secretion system co-chaperone YscE	NA	NA	NA	NA
WP_002212916.1\|41025_41289_+	type III secretion system needle filament protein YscF	NA	NA	NA	NA
WP_002229801.1\|41290_41638_+	type III secretion system chaperone YscG	NA	NA	NA	NA
WP_002212915.1\|41634_42132_+	T3SS polymerization control protein YopR	NA	NA	NA	NA
WP_002212914.1\|42132_42480_+	SctI family type III secretion system inner rod subunit LcrO	NA	NA	NA	NA
WP_002212912.1\|42486_43221_+	SctJ family type III secretion inner membrane ring lipoprotein YscJ	NA	NA	NA	NA
WP_002361471.1\|43220_43850_+	type III secretion system sorting platform protein YscK	NA	NA	NA	NA
WP_010981371.1\|43795_44461_+	SctL family type III secretion system stator protein YscL	NA	NA	NA	NA
WP_002212907.1\|44685_45033_+	type III secretion system exported negative regulator LcrQ/YscM1	NA	NA	NA	NA
WP_002213278.1\|47121_48528_-	T3SS effector protein-tyrosine-phosphatase YopH	NA	NA	NA	NA
WP_002213287.1\|50210_51077_-	type III secretion system effector acetyltransferase YopJ	NA	NA	NA	NA
WP_002213290.1\|51472_53671_-	type III secretion system effector protein kinase YopO/YpkA	NA	NA	NA	NA
WP_002229809.1\|53678_54128_-	hypothetical protein	NA	NA	NA	NA
WP_002213291.1\|54873_55113_-	hypothetical protein	NA	NA	NA	NA
WP_002213292.1\|56290_57169_-	incFII family plasmid replication initiator RepA	NA	NA	NA	NA
WP_002233140.1\|57149_57224_-	RepA leader peptide Tap	NA	NA	NA	NA
WP_002229817.1\|57465_57720_-	replication regulatory protein RepA	NA	NA	NA	NA
WP_002233137.1\|57857_58106_-	phospholipase	A0A1B2LRT6	Wolbachia_phage	9.2e-06	47.1
WP_002213294.1\|58522_58930_-\|transposase	IS3 family transposase	A0A1P8CWQ3	Bacillus_phage	4.7e-07	29.2
WP_002213244.1\|58953_59271_-\|transposase	transposase	NA	NA	NA	NA
WP_002213246.1\|59442_59901_-	hypothetical protein	NA	NA	NA	NA
WP_042469136.1\|59969_60239_+\|transposase	transposase	NA	NA	NA	NA
WP_002213256.1\|62850_65166_-\|transposase	Tn3 family transposase	Q1MVP5	Enterobacteria_phage	1.0e-279	51.6

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. NC_003143

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NC_003143_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003143_1

1646638-1646759

Orphan

Consensus_repeat	Method
CTTAATGCCAATATTAATCGACATAATCAATTG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003143_1

>merge|NC_003143|1|1646638-1646759|CRISPRCasFinder
CTTAATGCCAATATTAATCGACATAATCAATTGTAGTGGAGGGGGAGGATTGAGTTTTTTCCAAAAAAACATATTGCAGTATTAAATCTCTTAATGCCAATATTAATCGATATAATCAATTG

>NC_003143|1|1|1646638-1646759|CRISPRCasFinder
CTTAATGCCAATATTAATCGACATAATCAATTG	TAGTGGAGGGGGAGGATTGAGTTTTTTCCAAAAAAACATATTGCAGTATTAAATCT
CTTAATGCCAATATTAATCGATATAATCAATTG

Protein	Signature genes	Signature genes Name	Protein_function
NC_003143.1\|WP_002213028.1\|1650149_1651388_+\|hydroxymethylglutaryl-CoA-synthase-family-protein	unknown	unknown	gnl\|CDD\|225959
NC_003143.1\|WP_002213046.1\|1639092_1639422_-\|sulfurtransferase-TusE	unknown	unknown	gnl\|CDD\|225472
NC_003143.1\|WP_002213017.1\|1654209_1654458_+\|acyl-carrier-protein	unknown	unknown	gnl\|CDD\|180851
NC_003143.1\|WP_002213030.1\|1649396_1650134_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187594
NC_003143.1\|WP_002213024.1\|1652856_1653645_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|212491
NC_003143.1\|WP_002213054.1\|1637100_1637418_-\|heat-shock-protein-HspQ	unknown	unknown	gnl\|CDD\|184526
NC_003143.1\|WP_002213034.1\|1647597_1648122_+\|beta-hydroxyacyl-ACP-dehydratase	unknown	unknown	gnl\|CDD\|223835
NC_003143.1\|WP_002228570.1\|1653731_1654172_+\|lipocalin-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|372819
NC_003143.1\|WP_002213049.1\|1638762_1639041_+\|acylphosphatase	unknown	unknown	gnl\|CDD\|184675
NC_003143.1\|WP_002213061.1\|1632890_1634876_+\|DNA-helicase-IV	unknown	unknown	gnl\|CDD\|182930
NC_003143.1\|WP_002213058.1\|1635579_1636260_-\|DUF2057-family-protein	unknown	unknown	gnl\|CDD\|179619
NC_003143.1\|WP_002213036.1\|1647115_1647334_+\|hypothetical-protein	unknown	unknown	unknown
NC_003143.1\|WP_002213060.1\|1634936_1635401_-\|methylglyoxal-synthase	unknown	unknown	gnl\|CDD\|179969
NC_003143.1\|WP_002213056.1\|1636575_1636992_+\|CoA-binding-protein	unknown	unknown	gnl\|CDD\|224745
NC_003143.1\|WP_002213052.1\|1637478_1638669_-\|23S-rRNA-(cytosine(1962)-C(5))-methyltransferase-RlmI	unknown	unknown	gnl\|CDD\|185082
NC_003143.1\|WP_002213039.1\|1643067_1645485_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|366708
NC_003143.1\|WP_002213026.1\|1651380_1652100_+\|enoyl-CoA-hydratase/isomerase-family-protein	unknown	unknown	gnl\|CDD\|223955
NC_003143.1\|WP_002213032.1\|1648111_1649395_+\|beta-ketoacyl-[acyl-carrier-protein]-synthase-family-protein	unknown	unknown	gnl\|CDD\|238430
NC_003143.1\|WP_002213038.1\|1645638_1646385_-\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|180440
NC_003143.1\|WP_002213025.1\|1652101_1652854_+\|enoyl-CoA-hydratase/isomerase-family-protein	unknown	unknown	gnl\|CDD\|235936

Protein	Function_ID	Function_description	E-value
NC_003143.1\|WP_002213028.1\|1650149_1651388_+\|hydroxymethylglutaryl-CoA-synthase-family-protein	gnl\|CDD\|225959	COG3425, PksG, 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism].	1.57028e-141
NC_003143.1\|WP_002213046.1\|1639092_1639422_-\|sulfurtransferase-TusE	gnl\|CDD\|225472	COG2920, DsrC, Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism].	2.4785e-71
NC_003143.1\|WP_002213017.1\|1654209_1654458_+\|acyl-carrier-protein	gnl\|CDD\|180851	PRK07117, PRK07117, acyl carrier protein; Validated.	4.77778e-09
NC_003143.1\|WP_002213024.1\|1652856_1653645_+\|SDR-family-oxidoreductase	gnl\|CDD\|212491	cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold (alpha/beta folding pattern with a central beta-sheet), an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Classical SDRs are typically about 250 residues long, while extended SDRs are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD-binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human prostaglandin dehydrogenase (PGDH) numbering). In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107, PGDH numbering) contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Extended SDRs have additional elements in the C-terminal region, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs have lost catalytic activity and/or have an unusual NAD(P)-binding motif and missing or unusual active site residues. Reactions catalyzed within the SDR family include isomerization, decarboxylation, epimerization, C=N bond reduction, dehydratase activity, dehalogenation, Enoyl-CoA reduction, and carbonyl-alcohol oxidoreduction.	5.49415e-40
NC_003143.1\|WP_002213054.1\|1637100_1637418_-\|heat-shock-protein-HspQ	gnl\|CDD\|184526	PRK14129, PRK14129, heat shock protein HspQ; Provisional.	3.64231e-72
NC_003143.1\|WP_002213034.1\|1647597_1648122_+\|beta-hydroxyacyl-ACP-dehydratase	gnl\|CDD\|223835	COG0764, FabA, 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism].	1.09929e-42
NC_003143.1\|WP_002228570.1\|1653731_1654172_+\|lipocalin-like-domain-containing-protein	gnl\|CDD\|372819	pfam13924, Lipocalin_5, Lipocalin-like domain. This family includes domains distantly related to lipocalins. However, they do contain the important GXW motif in the first strand. The protein in this family include aln5, which is involved in biosynthesis of alnumycin. The family also includes the ZFK protein from Trypanosoma brucei which is a protein kinase. This domain is at the C-terminus of that protein. The domain is also found as the C-terminal domain in StiJ a protein involved in producing stigmatellin. This domain has been assumed to catalyze a final cyclisation reaction.	5.67247e-46
NC_003143.1\|WP_002213049.1\|1638762_1639041_+\|acylphosphatase	gnl\|CDD\|184675	PRK14426, PRK14426, acylphosphatase; Provisional.	1.02172e-54
NC_003143.1\|WP_002213061.1\|1632890_1634876_+\|DNA-helicase-IV	gnl\|CDD\|182930	PRK11054, helD, DNA helicase IV; Provisional.	0
NC_003143.1\|WP_002213058.1\|1635579_1636260_-\|DUF2057-family-protein	gnl\|CDD\|179619	PRK03641, PRK03641, DUF2057 family protein.	4.09411e-122
NC_003143.1\|WP_002213030.1\|1649396_1650134_+\|SDR-family-oxidoreductase	gnl\|CDD\|187594	cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs. This subgroup includes the Escherichai coli K12 BKR, FabG. BKR catalyzes the NADPH-dependent reduction of ACP in the first reductive step of de novo fatty acid synthesis (FAS). FAS consists of four elongation steps, which are repeated to extend the fatty acid chain through the addition of two-carbo units from malonyl acyl-carrier protein (ACP): condensation, reduction, dehydration, and a final reduction. Type II FAS, typical of plants and many bacteria, maintains these activities on discrete polypeptides, while type I FAS utilizes one or two multifunctional polypeptides. BKR resembles enoyl reductase, which catalyzes the second reduction step in FAS. SDRs are a functionally diverse family of oxidoreductases that have a single domain with structurally conserved Rossmann fold (alpha/beta folding pattern with a central beta-sheet) NAD(P)(H) binding region and a structurally diverse C-terminal region. Classical SDRs are typically about 250 residues long, while extended SDRS are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes have a 3-glycine N-terminal NAD(P)(H) binding pattern: TGxxxGxG in classical SDRs. Extended SDRs have additional elements in the C-terminal region, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P) binding motif and an altered active site motif (YXXXN). Fungal type type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs have lost catalytic activity and/or have an unusual NAD(P) binding motif and missing or unusual active site residues. Reactions catalyzed within the SDR family include isomerization, decarboxylation, epimerization, C=N bond reduction, dehydratase activity, dehalogenation, Enoyl-CoA reduction, and carbonyl-alcohol oxidoreduction. A critical catalytic Tyr residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase (15-PGDH) numbering), is often found in a conserved YXXXK pattern. In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or additional Ser, contributing to the active site. Substrates for these enzymes include sugars, steroids, alcohols, and aromatic compounds. The standard reaction mechanism is a proton relay involving the conserved Tyr-151 and Lys-155, and well as Asn-111 (or Ser). Some SDR family members, including 17 beta-hydroxysteroid dehydrogenase contain an additional helix-turn-helix motif that is not generally found among SDRs.	2.26541e-68
NC_003143.1\|WP_002213060.1\|1634936_1635401_-\|methylglyoxal-synthase	gnl\|CDD\|179969	PRK05234, mgsA, methylglyoxal synthase; Validated.	2.55286e-93
NC_003143.1\|WP_002213056.1\|1636575_1636992_+\|CoA-binding-protein	gnl\|CDD\|224745	COG1832, COG1832, Predicted CoA-binding protein [General function prediction only].	1.53332e-71
NC_003143.1\|WP_002213052.1\|1637478_1638669_-\|23S-rRNA-(cytosine(1962)-C(5))-methyltransferase-RlmI	gnl\|CDD\|185082	PRK15128, PRK15128, 23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI.	0
NC_003143.1\|WP_002213039.1\|1643067_1645485_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|366708	pfam01565, FAD_binding_4, FAD binding domain. This family consists of various enzymes that use FAD as a co-factor, most of the enzymes are similar to oxygen oxidoreductase. One of the enzymes Vanillyl-alcohol oxidase (VAO) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyzes the oxidation of a wide variety of substrates, ranging form aromatic amines to 4-alkylphenols. Other members of this family include D-lactate dehydrogenase, this enzyme catalyzes the conversion of D-lactate to pyruvate using FAD as a co-factor; mitomycin radical oxidase, this enzyme oxidizes the reduced form of mitomycins and is involved in mitomycin resistance. This family includes MurB an UDP-N-acetylenolpyruvoylglucosamine reductase enzyme EC:1.1.1.158. This enzyme is involved in the biosynthesis of peptidoglycan.	1.41205e-31
NC_003143.1\|WP_002213026.1\|1651380_1652100_+\|enoyl-CoA-hydratase/isomerase-family-protein	gnl\|CDD\|223955	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism].	1.17502e-35
NC_003143.1\|WP_002213032.1\|1648111_1649395_+\|beta-ketoacyl-[acyl-carrier-protein]-synthase-family-protein	gnl\|CDD\|238430	cd00834, KAS_I_II, Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen condensation of malonyl-acyl carrier protein (ACP) with acyl-ACP.	2.93328e-136
NC_003143.1\|WP_002213038.1\|1645638_1646385_-\|SDR-family-oxidoreductase	gnl\|CDD\|180440	PRK06172, PRK06172, SDR family oxidoreductase.	1.01866e-70
NC_003143.1\|WP_002213025.1\|1652101_1652854_+\|enoyl-CoA-hydratase/isomerase-family-protein	gnl\|CDD\|235936	PRK07110, PRK07110, polyketide biosynthesis enoyl-CoA hydratase; Validated.	2.57932e-133

>NC_003143.1|WP_002213038.1|1645638_1646385_-|SDR-family-oxidoreductase
MKKTILITGALSGIGNTATKLFSEMGYNVVFSGRRPEEGRVILDDLKRINKDVLYVNADMNSESDIKHLIEMTLERFGSLDVAVNCAGTVGETAEIQAVTQDNFHLVFNTNVLGTLLAMKYQIPVMVERGKGSIINISSIAGLVGLPSTGIYVASKHAIEGLTKTAALEVATTGVRINSISPGPVEGKMFDRFLGHDENNKKAFIEMMPNKRFTTQEEVAHTIVFLAEDNVTAITGQTITIDGGYTAQ
>NC_003143.1|WP_002213039.1|1643067_1645485_-|GNAT-family-N-acetyltransferase
MTTTLDIINSAKDLDPAEYRAFFLQSKAPLFYDLRFLIAAEQSPLLNVSKIFYLLARDEGRLIALVPLYLQEFRSADPLGLLISSAKLSIESEERGLFSHIIHCTDTTIPTLSHDPSLYARIFDAITAIAQAELARYFCFLNVQDGVLLREAQRNGLNINYMVDKFSIELDAFPDFDSFAQALPKYRRYEMVRQLRIFNRSDAKVRILAPPFDNEIEKLARLYYLTTQRLGTPYYWPESQLAVFCRLCGDLVRLIVVEQNGQIVSGFICFEEDGALHFWSAGMDDESSDFSPYTLGVSAVYRYAFEKGINLIECGRLNSHIKTRLGFKPKRLYSIVSQDLGIPAATQTSLSQLKLASQLDGEVRLASHPAFDEWYLTSVWNGRGPTRRPAGIVRAATEADVIRTIVFAKERGMEVSVRGSGHNYVGCFLRVDTLMLDISGLKGLDIDSRHKRAIVESGVSSGQLCHALAAKGLAFPTGHVKEVGISGFLLGGGLGINCSQWGGMSVFNVQALDIVTADGHLRHVSETQEPDLFWAARGAGPCSFFVVTRFYLSCYSLPRVITNSLYTLPFTYLHDLLARLEDASPPTNLQVMVSVSPPTSGDTPAVLLNILAFTDSPQEAQALCESFETRLELPLTALAINQPSNFETIYEQFSSMVVSKRFYADNILTDNTQELVSILSRYLSDAPSRGALTTIFWRGVTTYPQAAFSAHGKFFVSTYAQWDDAKDDSVNKYWLKRMYDELQEIARSRYINEYDLETRAGETSKCFAAENWERLQRLRLEYDPDGVFVDVQQLEEHGDQPGANN
>NC_003143.1|WP_002213046.1|1639092_1639422_-|sulfurtransferase-TusE
MLEFEGRIIDTDAQGYLKNSTDWSEALAPVLAEQEGITLTEPHWEVVRFVRAFYQEFNTSPAIRMLVKAMAQKYGEEKGNSRYLYRLFPKGPAKQATKIAGLPKPVKCI
>NC_003143.1|WP_002213049.1|1638762_1639041_+|acylphosphatase
MSKIYIVAYVYGVVQGVGFRYSTQRQAQQLGVTGYAKNCDDGSVEVVASGNPQAVERLMEWIRQGGPRGARVDRLLTEPYPPTPFETFSIRY
>NC_003143.1|WP_002213052.1|1637478_1638669_-|23S-rRNA-(cytosine(1962)-C(5))-methyltransferase-RlmI
MTVRLILAKGREKSLLRRHPWIFSGAVQRLEGDALSGETIDILDSQGKWLARAAYSPESQILARVWTFQQDEVIDCAFFIRRLQQAQNWRDWLAQRDGLNGYRLIAGESDGLPGITIDRFQNFLVLQLLSAGAEYQRETLVSALQHCYPECSIYDRSDVSVRKKEGLPLTQGLICGEMPPALLPISENGMQLFVDIQQGHKTGFYLDQRDSRLAARNYANGRRVLNCFSYTGAFAVAALMGNCQQVISVDTSQSVLDIAKQNIELNQLDLSKTEFVRDDVFQLLRSYRAQGEKFDLIIMDPPKFVENKSQLASACRGYKDINMLAIQLLRPGGILLSFSCSGLMPVDLFQKILADAALDAGHDIQFIEQFRQAADHPVIAAYPEGLYLKGFACRVM
>NC_003143.1|WP_002213054.1|1637100_1637418_-|heat-shock-protein-HspQ
MIASKFGIGQQVRHSLHGYLGVVIDIDPEYSLAPPEPDEVANNKTLRSSPWYHVVIEDDDGQPVHTYLAEAQLTYEDVDAHPEQPSLDELAASIRHQLQAPHLRN
>NC_003143.1|WP_002213056.1|1636575_1636992_+|CoA-binding-protein
MHDKDIADILKKVKTIALVGASDIPSRPSYRVMAYLLQQGYQVTPVNPKLAGELLLGQLVYAELADIPHAIDMVDVFRNSDAAYCIAQDAIAIGAKVLWLQIGVINEQAAILATDAGLQVVMDRCPKIELPRLGLEKG
>NC_003143.1|WP_002213058.1|1635579_1636260_-|DUF2057-family-protein
MKLGLVAGMLAVCFSFSSVAMTLKLTPEIDLLVVDGKNMSGSLLKGADSLELNSGMHQILFKVIKPLPTDPLVLYSSPPLIVVFNAHNTRSVAIKLPVINTLRDGHQFSKNPLYQLIGDNGHPLSVRHDVLRQDHLNNSTTLETVMAAYNVGKYNASVPAFAAIPPSPVSAVPGTTIPVAGVNTPHKTASLQGENVTEQMLQYWFLQANPETQKRFLIWAKKQPIH
>NC_003143.1|WP_002213060.1|1634936_1635401_-|methylglyoxal-synthase
MELTTRTIAARKHIALVSHDHCKKSLLAWVMENRDLLAQHELYATGTTGNLVQKATGIDVHCLLSGPMGGDQEVGALISEKKIDILIFFWDPLNAVPHDPDVKALLRLATVWNIPVATNRSTADFLIGSTLFSSEVTIAIPDYDRYMQQRLDLK
>NC_003143.1|WP_002213061.1|1632890_1634876_+|DNA-helicase-IV
MELKATSFGKHLSQHPYNRVRLLNAGIEVCGDKHQYLIPFNQLVSIQCKRGIVWGELEFELPQQKVVRLHGTEWQETQHFYHYLLGVWQQWSEEMSQVCAEVLHKQVESIKRIEQQDKWFKRSELGQIQVMIREAFSALPMPVERLAAFESCRADYECCLRWLQQGRHSVERCNQQWTARMLEEYQDFFQNVETSPLNASQSRAVVNGEDSVLVLAGAGSGKTSVLVARAGWLLRRNEALPEQILLLAFGRQAADEMNSRIKQRLGVDSIQAKTFHALALHIIQQGSRKTPVISKLESDSQARRALLIQHWQQQCSEKKAQDKRLAARLASRLERWVGLMRMYGGSQAEMIEQANDEVRDLFQKRIRLMAPLLKAWKTALKDEGAVDFSGLIHQAVNLLEKGRFVSPWKHVLVDEFQDISPQRAMLLAALRKQNKQTCLFAVGDDWQAIYRFSGAELSLTTAFSEHFGEGAECALDTTYRFNDRIGDIANRFIQQNPYQLKKPLNSLSKGNKKSVMILPDEQLEALLDKLSGFVKDGERILILARYHHLRPEVLQKAATRWPKLTIDFMTIHASKGQQADYVIIVGLHEGNDGFPAAARESVLEDVLLPPPEDFPDAEERRLLYVAITRAKHQVWLLQDTARPSIFVSQLSELGALVQRKP
>NC_003143.1|WP_002213036.1|1647115_1647334_+|hypothetical-protein
MYLLQQIELCPDQILHAWKISQNPQVSEVFEIEVVSSEEDAEEAVLFWKAYFSSLGETVIDGRHVGDTFSRF
>NC_003143.1|WP_002213034.1|1647597_1648122_+|beta-hydroxyacyl-ACP-dehydratase
MKNTELNFLKTNFLFNQDITNELNTSFGQDIIKKMIPHREPFLMVDNVELINIECRLIKAIRRVDEKDPVFGGHFPNDPIYPGVLQQESMFQTALILMYFLLNETAIPPAEENIIHAVGTRVYDVFHLSAVRPGELMTIRCCITEYDTFLATAIVQITVNDQIVTVGKGEFHVF
>NC_003143.1|WP_002213032.1|1648111_1649395_+|beta-ketoacyl-[acyl-carrier-protein]-synthase-family-protein
MSSDRIVITGVAINTPIGDTLDLVGNNLLSGKSAIGYWRNFDTSNIYSKIGGQIPEYDIEGKLHAFSNRIPDIVLSRAEKVFKQTTKGVQLSVLMAMEAWLDAGLFEHIIDPFDCGIICGGHNLSDKYLLDQQKIFSDEPEFIDAFSGLNSLDTDHSSSVAQVLNTKGFAYLVGGTCATGNIAIQTAINAIKVDKKQVVAVVCPMASFHPMMLHSLTILEAICYSQYQDTPTKASRPYDINRSGFLPSEGGAVLIFEQAEHAKNRGAKIYAELLGASVNSDANHLGDPSHEGQVRVIQDVLKKCNISPEQVDYVSAHATSTKLGDIVELKSIKRVFGSHAEKLIINAPKSLLGHTMWASGVVEAAIAIWQMRQGEFHQSHNIETLDPAVELNVCASGNVKKEVNIFLNNSFGMGGINSASLFSRYHG
>NC_003143.1|WP_002213030.1|1649396_1650134_+|SDR-family-oxidoreductase
MNLFISGGASGIGRSVVIAALSKGWNVGFSYHNNKEGAQQLLDIAVAEFPRQLCRAYQLDVIDSGAVEYVGDRLLVDFSNIDAVVCNAGIDLPGNLVSMTDEDWALVLNTNLTGTFYLIRYFLPLFLANKYGRIVTLSSLAKDGSSGQAAYAASKAGLVGLTKTTAKEYGHFGITANVVVPGLINTEIIGDDIKGIKNFFAQYAPVGRLGSPSEVAEAILFLVAKESSYVNGAVFNVTGGIDWVY
>NC_003143.1|WP_002213028.1|1650149_1651388_+|hydroxymethylglutaryl-CoA-synthase-family-protein
MNSIGIEKISIYPSSLALKLSELAQARGGDNKYIQESLMVIKRSLVPQWEDAVTLAVNSAKDMLNDQDRSDIGLFIIATESGLDQEKAISTWAHRYLGLPATCRVFELKSACHAGAAALKMAESWISSGLNRGKKVLLINVDISNNMICHGKMEYSLGAGAIALLISDNPVFAVIETGKSGIHTHEVTDVIRPLPWKEVAFDVEASLFSYMDGLENAFEEYCHQTPEARESTYFNYNLYHVPFPGISKEAHKVLLELQGLFGKEALATSFKQKVMPSLYYAQKIGATYCGSIFLSLFSLMVKAPEIKSGDRIGVYSYGSGSCAEYFSMQVGDQAVEIAQQQGAALDILLTQRKILDVAAYEQLENARSAQMQGKDYRLDGDNLQDWYTHHYSGSGLLILERIDNHLRRYRYA
>NC_003143.1|WP_002213026.1|1651380_1652100_+|enoyl-CoA-hydratase/isomerase-family-protein
MHEYVTVPIKFSPDSLADFENRFISALNDERYKVIVLIGGPTYFSMGMDLTYISTHYDADFVSQFCHILKMVRNSHKPVLAKVEGNVIAGGLALLSVVDFILSSDSASFSLPEVTFGITPTIAMSCLLERIRPHHLKYFVWSSSVISAKQALKWGLIDQINTLENLDQDIQVISNKLSRIPKSAIRESKLLLAEQYSFEESLDLGSHLLVERLNDAQTIEKIRHYLEDIKLFNDEYADD
>NC_003143.1|WP_002213025.1|1652101_1652854_+|enoyl-CoA-hydratase/isomerase-family-protein
MKKIYLRKSDEGIAFMHINDPVNKNAIDDEFCLQLHGIVDTIKQDKTIKVLILVGLPDIFCTGGTEAFLQSLITHYKTNIEHEYANHLKHFLNIPIPVIAAMEGSATGGGLVLGLYADILVAAEESRYGMSFMNMGFTPGMGSTAMSKEAFGYYTGFEMMVTGNYIRGSELKGKCCFNYILPRAMVMEKAIELATSIAEKPRHSLELLKKYMSIDRRKMLEETSTIEAFMHHIAFNQSNIEQQIQDNYTG
>NC_003143.1|WP_002213024.1|1652856_1653645_+|SDR-family-oxidoreductase
MLNNLSEMTVLVTGGTKGIGRATVESFVKAGAKVYGTYFWGDNLDELENHFSQYLNRPVFLQADISDEEITTQLIEKIAQENKKIDILILNAAFAPQFKDTYKFRGLLDSIEHNSWPLITYIDCIKQHFGQYPGYVVAITSEGHRSCHITGYDYVAASKAVLETLTKYIGARENIIINCISPGVVDTEAFELVFGKKAQAFIRKFDPDFIVSPEAVGNVSVALCSGLMDAVRGQVITVDNGRMFTDNFTKWIDMIETNFIEK
>NC_003143.1|WP_002228570.1|1653731_1654172_+|lipocalin-like-domain-containing-protein
MSNPNRNLFLGRWKLESCIGNSGGIHIYPIGREPFGMLIYTEQYMMVFISSVERTQFSTEDIRAIPSEQIVADFPKFETYCGHYIVNHDEKIVTHFIDNSKIPNQIGTQFRRYFSFEHEKLVLKSIDSLLLNDESWLFELVWNKQE
>NC_003143.1|WP_002213017.1|1654209_1654458_+|acyl-carrier-protein
MDRDHIASIVKKHIVNSIDGAKEHEIDLQKSMADYGASSLDIVSVVSGVMRELKIKIPRTELKNIKSINGLIDLFVTSSSES

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Crispr_ID: NC_003143_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003143_2

1773655-1773862

Orphan

I-F

Consensus_repeat	Method
GTTCACTGCCGCACAGGCAGCTTAGAAA	PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRT

3 spacers

DEDDh

The CRISPR arrays of NC_003143_2

>merge|NC_003143|2|1773655-1773862|PILER-CR,CRISPRCasFinder,CRT
GTTCACTGCCGCACAGGCAGCTTAGAAAATGTTCGACGATTTATTTTATTTGTATTTCAGGTTCACTGCCGCACAGGCAGCTTAGAAAATTTATTAAAGATGCTGACAAAAAGAACTTAAGTTCACTGCCGCACAGGCAGCTTAGAAAGTCAACGCTTCACTCCCTGCGCGGGGTATAACGTTCACTGCCGCACAGGCAGCCCAATAA

>NC_003143|2|1|1773655-1773802|PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGTTCGACGATTTATTTTATTTGTATTTCAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATTTATTAAAGATGCTGACAAAAAGAACTTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA

>NC_003143|2|2|1773655-1773862|CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGTTCGACGATTTATTTTATTTGTATTTCAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATTTATTAAAGATGCTGACAAAAAGAACTTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GTCAACGCTTCACTCCCTGCGCGGGGTATAAC
GTTCACTGCCGCACAGGCAGCCCAATAA

>NC_003143|2|1|1773655-1773862|CRT
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGTTCGACGATTTATTTTATTTGTATTTCAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATTTATTAAAGATGCTGACAAAAAGAACTTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GTCAACGCTTCACTCCCTGCGCGGGGTATAAC
GTTCACTGCCGCACAGGCAGCCCAATAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_003143.1\|WP_002231208.1\|1765315_1765363_-\|his-operon-leader-peptide	unknown	unknown	unknown
NC_003143.1\|WP_002211896.1\|1764133_1765033_-\|ATP-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|234781
NC_003143.1\|WP_002211902.1\|1771768_1773160_+\|APC-family-permease	unknown	unknown	gnl\|CDD\|223605
NC_003143.1\|WP_002211912.1\|1784511_1784934_-\|thiol-disulfide-oxidoreductase-DCC-family-protein	unknown	unknown	gnl\|CDD\|225556
NC_003143.1\|WP_002211917.1\|1787023_1788301_+\|L-fuconate-dehydratase	unknown	unknown	gnl\|CDD\|239440
NC_003143.1\|WP_002216388.1\|1779021_1782174_-\|inverse-autotransporter-beta-barrel-domain-containing-protein	unknown	unknown	gnl\|CDD\|378762
NC_003143.1\|WP_002216311.1\|1769038_1769932_-\|sugar-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224053
NC_003143.1\|WP_002211916.1\|1786149_1786992_+\|fumarylacetoacetate-hydrolase-family-protein	unknown	unknown	gnl\|CDD\|223257
NC_003143.1\|WP_002216393.1\|1785361_1786102_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187626
NC_003143.1\|WP_002211900.1\|1767399_1768395_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224093
NC_003143.1\|WP_002211905.1\|1775619_1776729_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187547
NC_003143.1\|WP_002216310.1\|1768391_1769081_-\|sugar-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224053
NC_003143.1\|WP_190947800.1\|1767021_1767135_-\|gluconate-5-dehydrogenase	unknown	unknown	unknown
NC_003143.1\|WP_002211904.1\|1773896_1775327_-\|exodeoxyribonuclease-I	DEDDh	cd06127_DEDDh_CAS-I	gnl\|CDD\|236979
NC_003143.1\|WP_002211911.1\|1783198_1784503_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|340877
NC_003143.1\|WP_002211898.1\|1765738_1766566_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187576
NC_003143.1\|WP_002209743.1\|1777850_1779059_+\|IS256-family-transposase	unknown	unknown	gnl\|CDD\|225865
NC_003143.1\|WP_002217522.1\|1777162_1777480_+\|DUF496-family-protein	unknown	unknown	gnl\|CDD\|180070
NC_003143.1\|WP_002216312.1\|1770217_1771309_+\|oxidoreductase	unknown	unknown	gnl\|CDD\|182570
NC_003143.1\|WP_157131899.1\|1766720_1767011_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|374732

Protein	Function_ID	Function_description	E-value
NC_003143.1\|WP_002211896.1\|1764133_1765033_-\|ATP-phosphoribosyltransferase	gnl\|CDD\|234781	PRK00489, hisG, ATP phosphoribosyltransferase; Reviewed.	6.63843e-161
NC_003143.1\|WP_002211902.1\|1771768_1773160_+\|APC-family-permease	gnl\|CDD\|223605	COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism].	3.72025e-45
NC_003143.1\|WP_002211912.1\|1784511_1784934_-\|thiol-disulfide-oxidoreductase-DCC-family-protein	gnl\|CDD\|225556	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function prediction only].	5.0494e-57
NC_003143.1\|WP_002211917.1\|1787023_1788301_+\|L-fuconate-dehydratase	gnl\|CDD\|239440	cd03324, rTSbeta_L-fuconate_dehydratase, Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to mediate the down-regulation of thymidylate synthase protein by a novel intercellular signaling mechanism. A member of this family, from Xanthomonas, has been characterized to be a L-fuconate dehydratase. rTS beta belongs to the enolase superfamily of enzymes, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion.	0
NC_003143.1\|WP_002216311.1\|1769038_1769932_-\|sugar-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224053	COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism].	3.90601e-98
NC_003143.1\|WP_002211916.1\|1786149_1786992_+\|fumarylacetoacetate-hydrolase-family-protein	gnl\|CDD\|223257	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism].	8.96038e-107
NC_003143.1\|WP_002216393.1\|1785361_1786102_+\|SDR-family-oxidoreductase	gnl\|CDD\|187626	cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs. Human DHRS6, and similar proteins. These proteins are classical SDRs, with a canonical active site tetrad and a close match to the typical Gly-rich NAD-binding motif. Human DHRS6 is a cytosolic type 2 (R)-hydroxybutyrate dehydrogenase, which catalyses the conversion of (R)-hydroxybutyrate to acetoacetate. Also included in this subgroup is Escherichia coli UcpA (upstream cys P). Classical SDRs are typically about 250 residues long, while extended SDRs are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD-binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase (15-PGDH) numbering). In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH numbering) contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Extended SDRs have additional elements in the C-terminal region, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs have lost catalytic activity and/or have an unusual NAD(P)-binding motif and missing or unusual active site residues. Reactions catalyzed within the SDR family include isomerization, decarboxylation, epimerization, C=N bond reduction, dehydratase activity, dehalogenation, Enoyl-CoA reduction, and carbonyl-alcohol oxidoreduction. Note: removed : needed to make this chiodl smaller when drew final trees: rmeoved text form description: Other proteins in this subgroup include Thermoplasma acidophilum aldohexose dehydrogenase, which has high dehydrogenase activity against D-mannose, Bacillus subtilis BacC involved in the biosynthesis of the dipeptide bacilysin and its antibiotic moiety anticapsin, Sphingomonas paucimobilis strain B90 LinC, involved in the degradation of hexachlorocyclohexane isomers...... P).	1.05065e-117
NC_003143.1\|WP_002211900.1\|1767399_1768395_-\|ABC-transporter-permease	gnl\|CDD\|224093	COG1172, AraH, Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism].	1.22935e-72
NC_003143.1\|WP_002216388.1\|1779021_1782174_-\|inverse-autotransporter-beta-barrel-domain-containing-protein	gnl\|CDD\|378762	pfam11924, IAT_beta, Inverse autotransporter, beta-domain. This is a family of beta-barrel porin-like outer membrane proteins from enteropathogenic Gram-negative bacteria. Intimins and invasins are virulence factors produced by pathogenic Gram-negative bacteria. They carry C-terminal extracellular passenger domains that are involved in adhesion to host cells and N-terminal beta domains that are embedded in the outer membrane. This family represents the beta-barrel porin-like domain in the outer membrane that can be found in intimins, invasins and some inverse autotransporters.	1.47456e-126
NC_003143.1\|WP_002216310.1\|1768391_1769081_-\|sugar-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224053	COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism].	1.76633e-90
NC_003143.1\|WP_002211905.1\|1775619_1776729_+\|SDR-family-oxidoreductase	gnl\|CDD\|187547	cd05236, FAR-N_SDR_e, fatty acyl CoA reductases (FARs), extended (e) SDRs. SDRs are Rossmann-fold NAD(P)H-binding proteins, many of which may function as fatty acyl CoA reductases (FAR), acting on medium and long chain fatty acids, and have been reported to be involved in diverse processes such as biosynthesis of insect pheromones, plant cuticular wax production, and mammalian wax biosynthesis. In Arabidopsis thaliana, proteins with this particular architecture have also been identified as the MALE STERILITY 2 (MS2) gene product, which is implicated in male gametogenesis. Mutations in MS2 inhibit the synthesis of exine (sporopollenin), rendering plants unable to reduce pollen wall fatty acids to corresponding alcohols. This N-terminal domain shares the catalytic triad (but not the upstream Asn) and characteristic NADP-binding motif of the extended SDR family. Extended SDRs are distinct from classical SDRs. In addition to the Rossmann fold (alpha/beta folding pattern with a central beta-sheet) core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids. Extended SDRs are a diverse collection of proteins, and include isomerases, epimerases, oxidoreductases, and lyases; they typically have a TGXXGXXG cofactor binding motif. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	1.89947e-61
NC_003143.1\|WP_002211904.1\|1773896_1775327_-\|exodeoxyribonuclease-I	gnl\|CDD\|236979	PRK11779, sbcB, exonuclease I; Provisional.	0
NC_003143.1\|WP_002211911.1\|1783198_1784503_+\|MFS-transporter	gnl\|CDD\|340877	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily. This family is composed of predominantly bacterial transporters for hexuronate (ExuT), glucarate (GudP), galactarate (GarP), and galactonate (DgoT). They mediate the uptake of these compounds into the cell. They belong to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	1.17308e-74
NC_003143.1\|WP_002211898.1\|1765738_1766566_+\|SDR-family-oxidoreductase	gnl\|CDD\|187576	cd05266, SDR_a4, atypical (a) SDRs, subgroup 4. Atypical SDRs in this subgroup are poorly defined, one member is identified as a putative NAD-dependent epimerase/dehydratase. Atypical SDRs are distinct from classical SDRs. Members of this subgroup have a glycine-rich NAD(P)-binding motif that is related to, but is different from, the archetypical SDRs, GXGXXG. This subgroup also lacks most of the characteristic active site residues of the SDRs; however, the upstream Ser is present at the usual place, and some potential catalytic residues are present in place of the usual YXXXK active site motif. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Atypical SDRs include biliverdin IX beta reductase (BVR-B,aka flavin reductase), NMRa (a negative transcriptional regulator of various fungi), progesterone 5-beta-reductase like proteins, phenylcoumaran benzylic ether and pinoresinol-lariciresinol reductases, phenylpropene synthases, eugenol synthase, triphenylmethane reductase, isoflavone reductases, and others. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. In addition to the Rossmann fold core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	2.54107e-68
NC_003143.1\|WP_002209743.1\|1777850_1779059_+\|IS256-family-transposase	gnl\|CDD\|225865	COG3328, COG3328, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.39969e-152
NC_003143.1\|WP_002217522.1\|1777162_1777480_+\|DUF496-family-protein	gnl\|CDD\|180070	PRK05423, PRK05423, DUF496 family protein.	5.26004e-59
NC_003143.1\|WP_002216312.1\|1770217_1771309_+\|oxidoreductase	gnl\|CDD\|182570	PRK10586, PRK10586, putative oxidoreductase; Provisional.	0
NC_003143.1\|WP_157131899.1\|1766720_1767011_-\|hypothetical-protein	gnl\|CDD\|374732	pfam16695, Tai4, Type VI secretion system (T6SS), amidase immunity protein. Tai4 is a new form of autoimmunity protein for a type VI secretion system, T6SS. T6SS has roles in interspecies interactions, as well as higher order host-infection, by injecting effector proteins into the periplasmic compartment of the recipient cells of closely related species. Pseudomonas aeruginosa produces at least three effector proteins to other cells and thus has three specific cognate immunity proteins to protect itself. Tae4, or type VI amidase effector 4, in Enterobacter cloacae has a cognate Tai4 or type VI amidase immunity 4 protein. The effector is Tae4, pfam14113.	4.0065e-14

>NC_003143.1|WP_002211902.1|1771768_1773160_+|APC-family-permease
MAHDATVAVGTNQTGTNNRVQLRKTLTLVQVVMMGLAYLQPMTIFDTFGIVSGLTDGHVATSYAIALIAVLFTAVSYGKLVKRFPSAGSAYTYAQKSISPNVGFMVGWSSLLDYLFMPMINILLAKIYLEAIFPGVPSWIFVGALVSLMTLFNLRGINIVANLNSVIVVVQVAIMVVFMGLLIHGVYQGEGAGTLVSARPFYSENAHLVPMITGATILCFSFLGFDGISSLSEETPNAGKVIPKAIFLTALIGGIIFIAVSYCLQLYFPDISRFTDPEASQPEIMLFVAGKFFQSVILCFSCVTVLASGMAAHAGVSRLLYVMGRDGVFPEKVFGYVHPKWRTPAINVLLVGGVALSAISFDLVTATALINFGALVAFTFVNLSVIAQFYVRERRNSTFKDHFNYLILPMIGAGTVGVLWVNLESSSMTLGLVWGAIGLSYMVWKTRAFRRALPQFTEEPAQL
>NC_003143.1|WP_002216312.1|1770217_1771309_+|oxidoreductase
MSANAIRVQVGPANYFSFPGAIDKLSEFYPQAALDKALWIYGERALAAAQDYLPKAFHGPQAVRAKFSTHCSQSTVADLVSAAGGDRQVVIGIGGGAVLDTAKVVARQLGVPLVAIPTIAATCAAWTPLSVWYNEAGQALNFEIFNDANHLVLVEPRIMLHAPVEYLLAGIGDTLAKWYEAVVLSPQPETLSLTVRLGLQAALEIRNVLLKQSEAALQAVAQGELTQDFLDVVDAIIAGGGMVGGLGERYTRVAAAHAVHNGLTLLPQTEHFLHGTKVAYGILVQTALLGQDEVLRSLIVAFNQLGLPTHLAALDVDINDREAIDRVIGRILKPGESIHYLPIALNSEKVWAAIEQVEIAAQH
>NC_003143.1|WP_002216311.1|1769038_1769932_-|sugar-ABC-transporter-ATP-binding-protein
MSSIPPSRLEMRNISISFSGFHALQEVDFTLEGGSTHALIGANGAGKSTLMAILSGAHNHYRGEIFIDGQPIDIHSPRQARQHGIHVVQQEVDVALIPTLSVAENIMLDELADRGHLFNWPQLYRQAEALLEQLELKLNVRQRLESCTLAEKQQVLLARALSHQCRFLILDEPTAPLDQEESARLFRVVRRLQSEGIGIVFISHRIHELREVCDQLTVLRDGRRVSHDTMEGMSGEQIVEKMLGHTLEDISPLGERQSAAKHGCRKHYCRKHCYRSAAYMISISCAISPSHYIRAKF
>NC_003143.1|WP_002216310.1|1768391_1769081_-|sugar-ABC-transporter-ATP-binding-protein
MRDISLTLHQGEILGIAGLAGAGKTELCKALFGDTPSTLERGELSGKAWRPRSPDRSVAQGLALVPEERRKEGIFIDEGIPMNLSVAADDSFSRWSLFSRRQELSWAKELIERLGIRTSSPQQKLAHLSGGNQQKVAIGKWLRGDAQVLIFDEPTKGVDIKAKQDLFSLIDQLAQQGKGIIYASGEFSELVGLCDRICVLWDGRIVAELNAAEVDEETLLLFSTGGTPQ
>NC_003143.1|WP_002211900.1|1767399_1768395_-|ABC-transporter-permease
MSKELPLPDVQPWRHQLFDFLYKWGMLLTVVALIALFGLASDNFLDPNNIINILRSIAIVTVIAIGVSISLSIGGFDLSVGSTASLANAVVVSLFVWYGFGTTGAIILTLLICTLVGLFNAFLIVVLKIPDMLATLASLFVIQGVAMTYSRGGSITQSMLLPSGDMAEGVIPEIFSALGQVPVIVLIMLAVTVVVQLYLSLTKHGRRMYAIGGNPQAARLAGIRTVRYRVLAYVLSAQLAALGGILLASRIGSSQVNAGSGYLMDAVAAAYIGFSLAGSGKPNAFGTLIGAIILGVLQNGLVMLSVPYYAMDIIKGLVLAMALALTYIQKR
>NC_003143.1|WP_190947800.1|1767021_1767135_-|gluconate-5-dehydrogenase
MDVFTASLRSACSLRRGHFVNNLTYLFNFFLYSCSRS
>NC_003143.1|WP_157131899.1|1766720_1767011_-|hypothetical-protein
MQQKNNLENFALSICLAEGFPDGEINSEAFSAVGAYVELGAYPVEAYEEVSELAKKFLEKKYISKNGESKLTVMKCIDLSQSSELSAIKDKYTRHI
>NC_003143.1|WP_002211898.1|1765738_1766566_+|SDR-family-oxidoreductase
MKKVAIIGLGWLGMPLAQSLSRRGIDVVGSKTTPDGVDAARMSGINCYPLVLTPELICEPDDLAQLMAVDALVITLPASRTTAGGDHYFQAVQQVVDSALAFGVPRIIFTSSTSVYGETRGRIKESSPLQPVTVAGKTLMALEQWLHQLPHTSVDILRLAGLVGTDRHPGRFLAGKTGVKGGSQGVNLVHQEDVIAAIELLLNRPKGGHLYNLCAPIHPRKRDFYPACARALQLTPPEFAVEEQEGANREIDGSKICSELGFEYLYPDPSRMPLN
>NC_003143.1|WP_002231208.1|1765315_1765363_-|his-operon-leader-peptide
MNRVQFNHHHHHHPD
>NC_003143.1|WP_002211896.1|1764133_1765033_-|ATP-phosphoribosyltransferase
MLDKTRLRIAMQKSGRLSDESQELLSRCGIKINLQQQRLIAFAENMPIDILRVRDDDIPGLVMDGVVDLGIIGENVLEEELLNRRAQGDDPRYFTLRRLDFGGCRLSLAAPLDAEYTGPQCLQDTRIATSYPHILKQYLDKQGVRFKSCLLNGSVEVAPRAGLADAICDLVSTGATLEANGLREVEVIYRSKACLIQRDGEMSVDKQQLIDRLMTRIQGVIQARESKYIMMHAPSERLDEIITLLPGAERPTILPLAGDKSRVAMHMVSSETLFWETMEKLKALGASSILVLPIEKMME
>NC_003143.1|WP_002211904.1|1773896_1775327_-|exodeoxyribonuclease-I
MSDKNKQPTFYVHDYETFGQRPALDRPAQFAGVRTDLDFNLVEEPLVIYCKPADDYLPQPEAVMITGITPQHALANGVNEAEFSRQIHQAFSVPGTCILGYNNIRFDDEVSRNIFYRNFYDPYAYSWQGGNSRWDLLDVMRACYALRPEGIVWPENDDGLPSFKLEHLTKANGVEHLQAHDAMSDVYATIAMAKLVKQAQPRLFDYLYQHRSKHKINALIDIAEMTPLVHVSGMFGAARGNTSWVAPLAWHPENKNAVIMCDLAGDMSPLLELDSDTLRERLYTRRDKLQAQESAIPIKLVHINKCPVLAPAKTLLPENADRLGIDRQRCLQNLQLLRQNPQVREKVVALFAQAEPFAVTDDVDTQLYNGFFSDADRATIKIIQQTESQNLPALDLTFQDPRLEALLFRFRARNYPNTLNDSEQQRWLQHRREALSPERVQDYVLQLEQFYNQYEDDKEKLALLKALFEYAKGLVS
>NC_003143.1|WP_002211905.1|1775619_1776729_+|SDR-family-oxidoreductase
MKKLLLTGATGFLGGAVLEKLLLASSDFNYLLLVRANTPEQGLMRIRENLEKFYLPNELINKININHVLLGDLAEPDSFINDVRIDDVTHVINCAAIASFGNNPLIWKVNVEGTLAFGKRMAQVAGLQRFVHVGTAMACTPEADTVVDERVLSTENDAHLVEYTKSKSAIECLLAEHCPTLPLVFARPSIVVGHTRLGCQPSSSIFWVFRMALMLRKFMCSLDDHIDVIPVDYCADALLYILEYPNLPDDIYHISAGEKGSVSFSEIDQAMSVAAKQKPVGVNYSQVEYTALVQMRNQLKGIFGPCNERLMLKAMRLYGSFAMLNVRFSNERLLSLGMPRTPRFTDYIARCVESSHGMTIQQQMAVDFK
>NC_003143.1|WP_002217522.1|1777162_1777480_+|DUF496-family-protein
MDNASKPTFQDVLEFVRMFRRKNKLQREIVDNEKKIRDNQKRVLLLDNLSEYIKPGMSIEEVQAIIANMRGDYEDRVDDYIIKNADLSKERRELSKKLKAMGEVK
>NC_003143.1|WP_002209743.1|1777850_1779059_+|IS256-family-transposase
MDEKKLKALAAELAKGLKTEADLNAFSRMLTKLTVETALNAELTEHLGHEKNTPKSGSNTRNGYSSKTLLCDDGEIELNTPRDRENTFEPQLIKKNQTRITQMDSQILSLYAKGMTTREIVATFKEMYDADVSPTLISKVTDAVKEQVAEWQNRQLDALYPIVYMDCIVVKVRQNGSVINKAVFLALGINTEGQKELLGMWLAENEGAKFWLSVLTELKNRGLQDILIACVDGLKGFPDAINSVYPQTHIQLCIIHMVRNSLKYVSWKDYKAVTSGLKMVYQAPTEEAALMALDKFAEAWDDKYPQISKSWRTHWENLNTFFGYPPDIRKAIYTTNAIESVNSVIRAAIKKRKVFPTDDSVRKVVYLAIKDASKKWSMPIQNWRLAMSRFIIEFGDRLSDHL
>NC_003143.1|WP_002216388.1|1779021_1782174_-|inverse-autotransporter-beta-barrel-domain-containing-protein
MSLYRISSLHQAKQLNKNKQLNKTRISKSVVWANIVIQAIFPLSIAFTPAVMAAETVGASDEKPRSASQAEQSTANAATRLASILTNDDSAKQASSIARGTAANAGNEALQKWFNQFGSAKVQLNLDEKLSLKGSQLDVLLPLTDSPDLLTFTQLGGRYIDDRVTLNVGLGQRHFFAQQMLGYNLFIDHDASYSHTRIGVGAEYGRDFINLAANGYFGVSGWKNSPDLDKYDEKVANGFDLRSEAYLPTLPQLGGKLIYEQYFGDEVGLFGVDNRQKNPLAVTLGVNYTPIPLFTVGVDHKMGRAGMNDTRFNLGFNYAFGTPLTHQLDSDAVAIKRSLMGSRYNLVDRNNQIVMKYRKQNRVTLELPARVSGAARQTMPLVANATAQQGIDRLEWEASALTLAGGKITGSGNNWQITLPSYLSGGEGNNTYRISAIAYDTLGNASPVAYSDLVVDSHGVNTNASGLTAAPEILPANASASSVIEFNIKDNANQPITGIADELAFSLELVELPEELAKAKARSVPLKTVSHTLTKITESAPGIYQATLTSGSKPQLINITAQINGVPLADVQTKVTLIADESTATLQTSSLQIITNGSLADDTDANQIRAVVVDAYGNKLSGVQVNFTVGNNAKITETTLSDKQGGVTAAITSTKAGTYTVTAELNGVTQQIDVNFIPDAGTATLDDSDEYKLQWVTNGQVADGESTNSVQLTVVDKFGNTVPGVDVAFTTDIGAIISEVTPTDANGVATAKIISSQAKSHTVKATLNRKEQTVEVNFIADTATAEITANNFTVEVDGQVAGSGTNQVQALVVDKKGNPVANMTVNFTATNGVVVETTSAKTDENGKVTTNLSMTNVGGTISTVTATMINSANVTSTQDKPVIFYPDFTKATLNTPANTYSGFNINSGFPTTGFKNTHFQLSPHGITGANSDYDWVSSHPNVSVSNTGAITLQDNPGGKVTITATWKHDSSKVFTYDFTLNYWVGLYSSTNLSWAQANASCINAGMRLPTNREVSAGQDVRGVGSLLSLSIILCNCHRIKGDRSGGHRTR
>NC_003143.1|WP_002211911.1|1783198_1784503_+|MFS-transporter
MSNFNHYPDPTLNSAIKKAWYRLMPLMFIMYFVAFIDRINVGFAKDAMSADIGLSQSAFALGAGIFFAAYALFGIPANLMMNKLGAKVWLSSTTVVWGLLSAGTGLVSNEYQFVILRFLLGVAEAGFYPGILLLASIYFPNKIRASVIGIFVLGVPAALTLGSPISGALLDMQGFLGQPGWFWMFLLEGLPAVGLGIFAFFYLDDSPATARYLNPEEKQALLTQLSIEQSDTESSSVKAVLLSPKVWHLALIYGTIQVGVYGLIFFLPSQVATLLGSTLGFKESLVAAIPWAFSALGVYYIPRYADRKTHRRNPIATLNLVVAAIGLIISAYASPVLAIAALCLCAIGFLAVQPIFWTFPAQILSGKALAAGIGFCTTMGAFFSFLAPIIRVEAESQFNSPPAGLITLALFSLLSATLIFSLKFWPAKATAEVI
>NC_003143.1|WP_002211912.1|1784511_1784934_-|thiol-disulfide-oxidoreductase-DCC-family-protein
MSAPLPYIKPGERVIIYDGVCALCTGWVNFLIRHDRRHTVRLSAVQSKKGHALLEWAGLPTDKINTLVLIENQQVYLRSEAIFRVIANLPWPWRILGVLRIFPRPLRDRCYDGIALNRYRLFGRYDAVRKLKADHERRFL
>NC_003143.1|WP_002216393.1|1785361_1786102_+|SDR-family-oxidoreductase
MNLKGKKALVTAAGQGIGFNTATLFARKGAEVIASDINIAALSNIPGITAVSLDVTDTLAINDVAQAIGPIDVLFNCAGVVHSGDILTCSEQEWQFALDLNVTAMFHMIRAFLPGMIACQQGSIINMSSVASSIKGVPNRFAYSTSKAAVIGLTRSVAADYVTQGIRCNAICPGTVESPSLRQRIAVQAHAEGRSEADVFQAFAARQPIGRIGKAEEIAQLALYLASDASAYTTGTIHIIDGGWSN
>NC_003143.1|WP_002211916.1|1786149_1786992_+|fumarylacetoacetate-hydrolase-family-protein
MKLLRYGPVGEERPALLDELGEIRDLSAHIEDISGKFLLPATLYKLRQLDSASLPLVRGEQRLGACVGHVGKFICVGLNYADHAAETGAEIPQEPVIFNKWTSAIIGPNDDIEIPRNSVKTDWEVELGVVIGTGGRYIGEANAMSYVAGYCVVNDISEREFQLEHGGTWDKGKGCDTFGPIGPWLVTRDEIPDPHQLGLWLDVDGRRYQNGSTRTMIFKIPQIISYLSRFMSLQSGDVISTGTPPGVGLGQKPPVYLHAGQIMRLGIEGLGEQCQKTIQA
>NC_003143.1|WP_002211917.1|1787023_1788301_+|L-fuconate-dehydratase
MTIITALRTEDVRFPTSLELDGSDAMNPDPDYSAAYVILDTDNPALSGHGLTFTIGRGNEICCVAIHALEHLIVGRDLASMTANMGKFWREFTSDSQLRWIGPEKGAIHLATGAVINAVWDLWSKAEGKPLWRLVADMSPEELVRCIDFRYITDCITPEEALTLLQQRAHNKALRLEKLQDEGYPCYTTSAGWLGYPDDKLRRLCQDAVDAGFDYLKLKVGRDLEDDIRRVRITREVLGPDRKLMIDANQIWETNEAIPWVNQLAFANPWFIEEPTNPDDIEGHRRIRQGVAPVKVATGEMCQNRIMFKQFIMREAIDVVQIDACRLGGVNEVLAVMLMAAKYDLPVCPHAGGVGLCEYVQHLAMIDYLCIAGTDKGRVIEYVDHLHEHFVHPCVIKNAAYMPPEQPGFSIEMHQSSIEKYRFRV

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Crispr_ID: NC_003143_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003143_3

2769294-2769802

TypeI-F

I-F

Consensus_repeat	Method
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	CRISPRCasFinder
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	CRT
GTTCACTGCCGCACAGGCAGCTTAGAAA	PILER-CR

8 spacers

cas1,cas3f,cas8f,cas5f,cas7f,cas6f

The CRISPR arrays of NC_003143_3

>merge|NC_003143|3|2769294-2769802|CRISPRCasFinder,CRT,PILER-CR
TTTGATTATTGCCTGTGCGGCAGTGAACTCAGGGGACTGGCGAACAATGTCTTTCATGATTTTCTAAGCTGCCTGTGCGGCAGTGAACGAAAAGGTAAGATGGGCAAGCTTCTAGTAGTTTTTCTAAGCTGCCTGTGCAGCAGTGAACATTATCTGAATGGCATTTTCTTTGGCGCAGATTTTCTAAGCTGCCTGTGCGGCAGTGAACTCGCCATTCCGTGAACCTGAGCGCGTTCGCGATTTCTAAGCTGCCTGTGCGGCAGTGAACATATTCTCGAGCGATAGCAATAGCCATTCCACTTTCTAAGCTGCCTGTGCGGCAGTGAACTCGGTCAAACAAATTTAGGCGACGATTTAACATTTCTAAGCTGCCTGTGCGGCAGTGAACAAAAAGAATTTGGGATTAAAGTTACCCATCAGTTTCTAAGCTGCCTGTGCGGCAGTGAACTCAATGCCTGAATCTCTGGCGTGATAGCTGCGGTTTCTAAGCTGCCTGTGCGGCAGTGAAC

>NC_003143|3|3|2769294-2769802|CRISPRCasFinder
TTTGATTATTGCCTGTGCGGCAGTGAAC	TCAGGGGACTGGCGAACAATGTCTTTCATGAT
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	GAAAAGGTAAGATGGGCAAGCTTCTAGTAGTT
TTTCTAAGCTGCCTGTGCAGCAGTGAAC	ATTATCTGAATGGCATTTTCTTTGGCGCAGAT
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGCCATTCCGTGAACCTGAGCGCGTTCGCGA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	ATATTCTCGAGCGATAGCAATAGCCATTCCAC
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGGTCAAACAAATTTAGGCGACGATTTAACA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	AAAAAGAATTTGGGATTAAAGTTACCCATCAG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCAATGCCTGAATCTCTGGCGTGATAGCTGCGG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC

>NC_003143|3|2|2769294-2769802|CRT
TTTGATTATTGCCTGTGCGGCAGTGAAC	TCAGGGGACTGGCGAACAATGTCTTTCATGAT
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	GAAAAGGTAAGATGGGCAAGCTTCTAGTAGTT
TTTCTAAGCTGCCTGTGCAGCAGTGAAC	ATTATCTGAATGGCATTTTCTTTGGCGCAGAT
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGCCATTCCGTGAACCTGAGCGCGTTCGCGA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	ATATTCTCGAGCGATAGCAATAGCCATTCCAC
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGGTCAAACAAATTTAGGCGACGATTTAACA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	AAAAAGAATTTGGGATTAAAGTTACCCATCAG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCAATGCCTGAATCTCTGGCGTGATAGCTGCGG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC

>NC_003143|3|2|2769354-2769802|PILER-CR
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	GAAAAGGTAAGATGGGCAAGCTTCTAGTAGTT
TTTCTAAGCTGCCTGTGCAGCAGTGAAC	ATTATCTGAATGGCATTTTCTTTGGCGCAGAT
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGCCATTCCGTGAACCTGAGCGCGTTCGCGA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	ATATTCTCGAGCGATAGCAATAGCCATTCCAC
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCGGTCAAACAAATTTAGGCGACGATTTAACA
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	AAAAAGAATTTGGGATTAAAGTTACCCATCAG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC	TCAATGCCTGAATCTCTGGCGTGATAGCTGCGG
TTTCTAAGCTGCCTGTGCGGCAGTGAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_003143.1\|WP_002221142.1\|2764669_2767957_-\|type-I-F-CRISPR-associated-helicase-Cas3	cas3f	cd09673_cas3f_CAS-I-F	gnl\|CDD\|187804
NC_003143.1\|WP_002211867.1\|2760946_2761951_-\|type-I-F-CRISPR-associated-protein-Csy3	cas7f	cd09677_cas7f_CAS-I-F	gnl\|CDD\|378222
NC_003143.1\|WP_002211865.1\|2759284_2760304_+\|aldo/keto-reductase	unknown	unknown	gnl\|CDD\|381305
NC_003143.1\|WP_002211863.1\|2757365_2758724_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|340874
NC_003143.1\|WP_002210191.1\|2767953_2768934_-\|type-I-F-CRISPR-associated-endonuclease-Cas1	cas1	cd09718_cas1_CAS-I-F	gnl\|CDD\|132676
NC_003143.1\|WP_002210199.1\|2778493_2779780_-\|carbohydrate-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|224567
NC_003143.1\|WP_002211864.1\|2758770_2759274_+\|formaldehyde-activating-enzyme	unknown	unknown	gnl\|CDD\|224708
NC_003143.1\|WP_002210192.1\|2770139_2771384_+\|mechanosensitive-ion-channel-family-protein	unknown	unknown	gnl\|CDD\|223740
NC_003143.1\|WP_002210200.1\|2780051_2781092_+\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|380502
NC_003143.1\|WP_002210193.1\|2771966_2773241_-\|hypothetical-protein	unknown	unknown	unknown
NC_003143.1\|WP_002210198.1\|2777509_2778385_-\|sugar-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224096
NC_003143.1\|WP_002210194.1\|2773279_2774395_-\|hypothetical-protein	unknown	unknown	unknown
NC_003143.1\|WP_002222491.1\|2762915_2764262_-\|type-I-F-CRISPR-associated-protein-Csy1	cas8f	cd09675_cas8f_CAS-I-F	gnl\|CDD\|274203
NC_003143.1\|WP_002210201.1\|2781108_2782497_+\|phosphomannomutase/phosphoglucomutase	unknown	unknown	gnl\|CDD\|185312
NC_003143.1\|WP_002213840.1\|2774517_2775456_-\|DUF1861-family-protein	unknown	unknown	gnl\|CDD\|378102
NC_003143.1\|WP_002210197.1\|2776684_2777509_-\|carbohydrate-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223472
NC_003143.1\|WP_002211868.1\|2761968_2762919_-\|type-I-F-CRISPR-associated-protein-Csy2	cas5f	cd09676_cas5f_CAS-I-F	gnl\|CDD\|187807
NC_003143.1\|WP_002210196.1\|2775482_2776538_-\|glycoside-hydrolase-family-130-protein	unknown	unknown	gnl\|CDD\|350124
NC_003143.1\|WP_002216551.1\|2757032_2757242_-\|hypothetical-protein	unknown	unknown	unknown
NC_003143.1\|WP_002211866.1\|2760381_2760936_-\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	cas6f	cd09674_cas6f_CAS-I-F	gnl\|CDD\|378224

Protein	Function_ID	Function_description	E-value
NC_003143.1\|WP_002221142.1\|2764669_2767957_-\|type-I-F-CRISPR-associated-helicase-Cas3	gnl\|CDD\|187804	cd09673, Cas3_Cas2_I-F, CRISPR/Cas system-associated protein Cas3/Cas2. 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; Cas3/Cas2 fusion; This protein includes both DEAH and HD motifs for helicase and N-terminal domain corresponding to Cas2 RNAse; signature gene for Type I and subtype I-F.	0
NC_003143.1\|WP_002211867.1\|2760946_2761951_-\|type-I-F-CRISPR-associated-protein-Csy3	gnl\|CDD\|378222	pfam09615, Cas_Csy3, CRISPR-associated protein (Cas_Csy3). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2463 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy3, for CRISPR/Cas Subtype Ypest protein 3.	0
NC_003143.1\|WP_002211865.1\|2759284_2760304_+\|aldo/keto-reductase	gnl\|CDD\|381305	cd19079, AKR_EcYajO-like, Escherichia coli YajO and similar proteins. Escherichia coli YajO is the prototype of this family. It is an uncharacterized aldo/keto reductase family oxidoreductase.	6.34333e-143
NC_003143.1\|WP_002211863.1\|2757365_2758724_+\|MFS-transporter	gnl\|CDD\|340874	cd17316, MFS_SV2_like, Metazoan Synaptic vesicle glycoprotein 2 (SV2) and related small molecule transporters of the Major Facilitator Superfamily. This family is composed of metazoan synaptic vesicle glycoprotein 2 (SV2) and related small molecule transporters including those that transport inorganic phosphate (Pht), aromatic compounds (PcaK and related proteins), proline/betaine (ProP), alpha-ketoglutarate (KgtP), citrate (CitA), shikimate (ShiA), and cis,cis-muconate (MucK), among others. SV2 is a transporter-like protein that serves as the receptor for botulinum neurotoxin A (BoNT/A), one of seven neurotoxins produced by the bacterium Clostridium botulinum. BoNT/A blocks neurotransmitter release by cleaving synaptosome-associated protein of 25 kD (SNAP-25) within presynaptic nerve terminals. Also included in this family is synaptic vesicle 2 (SV2)-related protein (SVOP) and similar proteins. SVOP is a transporter-like nucleotide binding protein that localizes to neurotransmitter-containing vesicles. The SV2-like family belongs to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	3.50877e-50
NC_003143.1\|WP_002210191.1\|2767953_2768934_-\|type-I-F-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|132676	TIGR03637, cas1_YPEST, CRISPR-associated endonuclease Cas1, subtype I-F/YPEST. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is 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 protein particular to the YPEST subtype of CRISPR/Cas system.	0
NC_003143.1\|WP_002211864.1\|2758770_2759274_+\|formaldehyde-activating-enzyme	gnl\|CDD\|224708	COG1795, COG1795, Formaldehyde-activating enzyme nesessary for methanogenesis [Energy production and conversion].	1.50048e-90
NC_003143.1\|WP_002210192.1\|2770139_2771384_+\|mechanosensitive-ion-channel-family-protein	gnl\|CDD\|223740	COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane].	2.65074e-32
NC_003143.1\|WP_002210200.1\|2780051_2781092_+\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|380502	cd06279, PBP1_LacI-like, ligand-binding domain of an uncharacterized transcription regulator from Corynebacterium glutamicum and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Corynebacterium glutamicum and its close homologs from other bacteria. This group belongs to the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type 1 periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.	1.56156e-83
NC_003143.1\|WP_002210199.1\|2778493_2779780_-\|carbohydrate-ABC-transporter-substrate-binding-protein	gnl\|CDD\|224567	COG1653, UgpB, ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism].	2.85244e-50
NC_003143.1\|WP_002210198.1\|2777509_2778385_-\|sugar-ABC-transporter-permease	gnl\|CDD\|224096	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism].	2.26211e-58
NC_003143.1\|WP_002222491.1\|2762915_2764262_-\|type-I-F-CRISPR-associated-protein-Csy1	gnl\|CDD\|274203	TIGR02564, conserved_hypothetical_protein, CRISPR type I-F/YPEST-associated protein Csy1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This protein family, typified by YPO2465 of Yersinia pestis, is a CRISPR-associated (Cas) family strictly associated with the Ypest subtype of CRISPR/Cas locus. This family is designated Csy1, for CRISPR/Cas Subtype Ypest protein 1.	0
NC_003143.1\|WP_002210201.1\|2781108_2782497_+\|phosphomannomutase/phosphoglucomutase	gnl\|CDD\|185312	PRK15414, PRK15414, phosphomannomutase.	0
NC_003143.1\|WP_002213840.1\|2774517_2775456_-\|DUF1861-family-protein	gnl\|CDD\|378102	pfam08950, DUF1861, Protein of unknown function (DUF1861). This hypothetical protein, found in bacteria and in the eukaryote Leishmania, has no known function.	6.29599e-176
NC_003143.1\|WP_002210197.1\|2776684_2777509_-\|carbohydrate-ABC-transporter-permease	gnl\|CDD\|223472	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism].	4.72016e-69
NC_003143.1\|WP_002211868.1\|2761968_2762919_-\|type-I-F-CRISPR-associated-protein-Csy2	gnl\|CDD\|187807	cd09676, Csy2_I-F, CRISPR/Cas system-associated RAMP superfamily protein Csy2. 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; RAMP superfamily protein; predicted Cas5 ortholog.	1.12008e-157
NC_003143.1\|WP_002210196.1\|2775482_2776538_-\|glycoside-hydrolase-family-130-protein	gnl\|CDD\|350124	cd18612, GH130_Lin0857-like, Glycoside hydrolase family 130 such as Listeria innocua beta-1,2-mannobiose phosphorylase. This subfamily contains the glycosyl hydrolase family 130 (GH130), as classified by the carbohydrate-active enzymes database (CAZY), enzymes that are phosphorylases and hydrolases for beta-mannosides, and includes Listeria innocua beta-1,2-mannobiose phosphorylase (Lin0857). hey possess 5-bladed beta-propeller domains similar to families 32, 43, 62, 68, 117 (GH32, GH43, GH62, GH68, GH117). GH130 enzymes are involved in the bacterial utilization of mannans or N-linked glycans. Structure of Lin0857 shows beta-1,2-mannotriose bound in a U-shape, interacting with a phosphate analog at both ends. Lin0857 has a unique dimer structure connected by a loop, with a significant open-close loop displacement observed for substrate entry. A long loop, which is exclusively present in Lin0857, covers the active site to limit the pocket size.	9.75278e-165
NC_003143.1\|WP_002211866.1\|2760381_2760936_-\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	gnl\|CDD\|378224	pfam09618, Cas_Csy4, CRISPR-associated protein (Cas_Csy4). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This protein family, typified by YPO2462 of Yersinia pestis, is a CRISPR-associated (Cas) family strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy4, for CRISPR/Cas Subtype Ypest protein 4.	1.71931e-94

>NC_003143.1|WP_002210191.1|2767953_2768934_-|type-I-F-CRISPR-associated-endonuclease-Cas1
MENAIHSSDLKTILHSKRSNIYYLEYCRVLVNGGRVEYVTDEGKQSLYWNIPIANTTVIMLGTGTSVTQAAMREFARAGVLVGFCGGGGTPLFAANDVEVNVSWLTAQSEYRPTEYLHDWVSFWFDDEKRLAAAVAFQRIRIAQIQQHWLSSHIQRESLFPVNHDQLLFILTRFEQNLANCLTSNDLMVQEAVLTKALYKLAANTVNYGDFTRAKRGGGIDLANRFLDHGNYLAYGLAATATWVIGLPHGLSVLHGKTRRGGLVFDVADLIKDALVLPQAFIAAMQGEEEQEFRQRCISGFQRTEALDVMIDGIKETAALCSQVPR
>NC_003143.1|WP_002221142.1|2764669_2767957_-|type-I-F-CRISPR-associated-helicase-Cas3
MNILLISQCHKRALNETRRILDQFAERKGDRTWQTAITQEGLNTLRKLLRRTARRNSAVACHWIKSNNQSELLWIVGNLRRFNAEGTVPTNTTQRDILRSQDENNWHSVETIALLAGIAGLFHDFGKANVLFQQGLQGQGKTYQPYRHEWVSLRLFQAFVEQKNDIQWLTALSQINPADETTLMSNLVKDGLDDYTNPLAALPPLAKTIAWLILSHHRLPVYPSKDYHRPPKVEEIDDWLHQQLMPVWNSTNMDSGDWREKDKLDVWRFPHGTPLQSAEWCKKAQKFAKRALRQPSLVNDGHLNQRFTSHMARLVLMLADHHYSSLPATPGWQDKNYQVFANTHNKMRDANAHSKTIEMKQRLDEHNIGVGQNALLLGRSLPHIRKTLPAITRHKGFKQRSVQEKYRWQDKAFDLAVTLRERSLQQGFFGVNMASTGCGKTFANARIMYGLSDEKQGCRFSVALGLRTLTLQTGTALQQKLTLQKDDLAVLIGSQSVLQLYQLNNDKLEPRGTGSQSADKFFSEHQYVSYDGSLDDGRLSTWLSNNDRLKRLLCAPVLVCTIDHLIPATESLRGGKQIAPMLRLLTSDLVLDEPDDFDRNDLPALCRLVNWAGMLGSRVLLSSATLPPALVQALFNAYRAGRADYQQASGQPDTPVNICCAWFDEHGVAQQDIQQSKDFIQHHGDFITRRVGKLSTAEVLRRAELIPVSSASVKNGSVLDAMAAVMRDSMLRLHQAHHQTHPSEKTVSVGVVRMANIDPLVAIAQRLYAMAAPENYRIHYCVYHSQHPLAVRSAIERRLDVTLTRYQPNALWQVAEIEHALQHHPEQHHLFVVLATSVVEVGRDHDYDWALAEPSSMRSFIQLAGRVQRHRQVAPQMANMHILQKNFKALTQKDPAIPVYCKPGFETTRCRLNTHDLDKLLLPSQYKVINAISRIQERTKLEPRDNFVDLEHLSLRLILQGSAEPLKYYAALWWRKQATWSGEQQRCTPFRQSSPDEQHNLWIDDEADKPVFKRLDSDQIEWKVSDGFQDVELTLAAGNSAWIDTDCLRIYQWLAESLNKELNEVSRQFGEVRLPKKDGERWHYHPLLGVFGALD
>NC_003143.1|WP_002222491.1|2762915_2764262_-|type-I-F-CRISPR-associated-protein-Csy1
MSDEGLAAFIVSYIKSREQPKLEAFDKEAEKRLAGLTQAEDIALAQQEIAQQRQELIARYEVRNWLTDAANRAGQIKLATHAPKYTHSDSKSSGILNIELQSKKKDYFSSVDLAEQASDVIGNAAVFDLVKLLQSECEGGSLIKCLEQGDNSVLKLFSNDDELVEEWTTKFKSILNNEKFTSHKLAKQFYFPVGPDQYHLLSPLFSSSLAQAMHQRIIEARFSDQSKEAKAAHKAGRWHPTVRVLYLDTAVQHIGGTKPQNISYLNSVRGGKVWLLPCGAPSWKNIQKPPIKYRSIFHDRSEFTVLARNNLWQMQLYLLGVKPLSNTMDIRAARLACCDEIIDILFNYVAEIQNLDGTNGWSDAEDCKLKRSEQLWLDPTRAMDDPVFKLEREKEDWKQEVSQDFGYWLNRWLQHDELVFGYVEQREWSSLFKQRLREFEQGSLETSS
>NC_003143.1|WP_002211868.1|2761968_2762919_-|type-I-F-CRISPR-associated-protein-Csy2
MSSLIVLHQVRVENANAIAGLTYGFPAITHFLGYSHALSRKLQSSHGLTLRGCAVICHYQQVHAYLSGWDYVFSLTRNPLTKEAKTAAFNEEGRMHMTVSLVIECDGTIANGDDGANALEKHLASLCLTQRLAGGTITNIRRVKVINYPETEVATRRLLCRLLPGFALLDRSELLAEHLNRLRQTNPQAEMLDAWLDFSALKIQAIPPQSDTPVESGAPAPWGYVGKPAAGYLVPIVTGYRAISPLYAPGEVDKTRDPHTPFRFVESLYGIGEWRGLHRITDLRQLLWGYHQEGDNYLCRCALPASVDTYLLNDEE
>NC_003143.1|WP_002211867.1|2760946_2761951_-|type-I-F-CRISPR-associated-protein-Csy3
MAKATIKTASVLAFERKLSNSDAMMYAGNWGQTDNWQPIIIKEKAVRGTISNRLKNALASDPAKLDAEIQKANLQRVDVAALPFDTDTLKMSFTLRVLGNLATPSVCNDQEYQAELASVINGYISEQSFSVLAARYAENLANGRFLWRNRVGAEDIKVCITSQTKSYQFDSNEFSLRQFSQPSKELTALAQEIEQGLAGNGFAFFTVDAFVRLGNGQEVFPSQELVLDSNSKKSKVLYQIDGIAALHSQKVGNALRTIDDWYPDATELALGPIAVEPYGSVTSRGKAYRQPKQKMDFYTLLDNWVTKGTVPAVEQQHYVMATLIRGGVFGEKGE
>NC_003143.1|WP_002211866.1|2760381_2760936_-|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4
MDHYLDIRVLPDPEFSAQTLLEALFAKLHRALVATIPGRVGVSFPTAGKTLGSQLRLHGSRGDLLELQSAGWLKGLQDYCECSEILPVPADVKHRTIRRVQVKSSAQRLRRRSVSKGWLTEEQARLRIPDSHDKRCDLPFLRLKSRSSEQYFLLFIEQGTLQASATTGEFSAYGLSVNATIPWF
>NC_003143.1|WP_002211865.1|2759284_2760304_+|aldo/keto-reductase
MDYIKLGHCGLQVSRLCLGTMNMGSKQWKPWVFDKAESTPLIKHALDCGINFIDLADFYSAGVGEEVVGRIVKNLMSRDELVLTTKVGYPIGHGPNNQGHSRKHIMASIDASLKRLGTDYIDIYMLHYFDINTPVEETWSAMNDIIHSGKARYTGVSTMFTWQLSKILWCCERNGFAKPINMQLQLNCAYREEEREMIPQCRDQGLGISAFSPLARGLLSCDFSSVRNKTDFFTQEMYADVTSLNIAQSVERVAKNRGITPAQVAQAWVLNHPGTDCMLVGADTIEQINSAVTALRISLNAEEHFELERNYTPCDVINDYTAGQRIAREARPPSGIFAP
>NC_003143.1|WP_002211864.1|2758770_2759274_+|formaldehyde-activating-enzyme
MQMYIGEGFAGNGVNAAHINIMIGPRDGVVGQAFAASLASPSQGHYPFIVVIKPNVAAKPMTLYVNKAEIRSELHGRATWGASQAAVAKAVAEALLANLFPPEAEDDWCIITANWVNIDCDDIDEVYRNNYRACTTALHAAMAKTPKRDQLTHALTQLSNPFFTPKA
>NC_003143.1|WP_002211863.1|2757365_2758724_+|MFS-transporter
MQTLPSEKIRMDDVPLNRFHIRIAGLTFGAHFIDGYILGLIGFALIQLKPIMALTPLWEGLLGSAALIGLFLGSLILGWISDYIGRQKIFSFSFVIITLASALQFFASTPEQLFILRVIVGIGIGGDYSVGHTLLAEFSPRKHRGVLLGAFSVIWTFGYVSASFVGHYLSMVSPEAWRWLLSSAALPALLILLVRIGTPESPRWLMGKGREDDAMAIVHKYFGPNVTLIDEEPATSTRRFLSLFGRKYWRRTAFNSLFFVCLVIPYFAIYTFLPSILNVMALSQNFATDLLLNGLLVVGALVGIVLTAFCSRRSFLISSFIFLATCLLLLSILPSNQTFWLIALFAAFTLVMSAVSNLVGVFPAESFPTEVRSMGVGFATSMSRLGSAIGTSLLPLAIVNYGMPVTTTLLAFVLIIGAIVSIAWAPETKGLTLVDASQSATTPRPPSSIIPN
>NC_003143.1|WP_002216551.1|2757032_2757242_-|hypothetical-protein
MVIGDLLTETDRLFQKRTAAMDDLFSSPGPVRLILFVMAMCQPKYKAASAFYAYPSEKKVRDPPLNSYK
>NC_003143.1|WP_002210192.1|2770139_2771384_+|mechanosensitive-ion-channel-family-protein
MQQRISQWLERLGMEFSDVMSLTMVIGLILLISVMIHLVLHRVVLAALQRRGQQSQRIWQQAITKHKLFQRVALLLQGIIINLQAVLWLQNGSQTQAVIVTAAQVWIMAFALLALFSLLDTLLALLRQSSVAHQLPLRGICQGLKLVAAIFIGIMIVSLLMGRSPLLLLSGLGAMTAVLMLVFKDPILGLVAGIQLSANDMLKIGDWLEMPKYGADGAVTDIGLTTVKVRNWDNTVTTIPTYALISDSFKNWRSMSESGGRRIKRSINIDTTSVHFLSEQEQQRLTLNPLLQHYLSEKSQELNQYNQQIALDLSSPLNGRRLTNIGTLRAYLVAYLRAHLGIHQSMTLMVRQLAPTPEGLPLEVYAFTNTTIWAEYEGIQADIFDHIFAVVSEFDLRIHQTPSGNDMRSMLAKV
>NC_003143.1|WP_002210193.1|2771966_2773241_-|hypothetical-protein
MKLLNTLVCIIGLTSFSSSAKLVNAEHLDALYQKVTVANKTELGLIHIYSEFPDYRWVKDPIEGVSAIDDVARAAIFYQRQYQATGSAADLEKVKSLVEFILYQRADNGYFYNFIYPDHSINKEYKTSVAEPNWWTWRALWALTQVYPTLVKTDNALAQRTRETIFATIDVIYKDFNFKQTRGEKEGVAVPEWLPHTAGDQASVLLMALSDAQALEAKPEIEKMMRSLAAGIMLMQVKDTSSPVNGAFLSWQNLWHGYGNSQAYALLVAGNRLGDRDMIKAAFNELDHFHPWLISNGLLNEFTVRQQGEKVTLIEQKKFSQIAYIIRPMVFANIKAWEISRDAVYLERAVDLSLWFFKNNPAQAQMYYPVTGIAFDGIDSATTVNKNSGAESTIEALLTLQLIESIPDAKRMLESALEKRNIKQ
>NC_003143.1|WP_002210194.1|2773279_2774395_-|hypothetical-protein
MKHKKYLPLFLMAGICSVAQADNSPDVVSANNMDNRTFFAGDKIRIVKDGGETIEAVVELSDDNIGIVRIPKDEKAYFHGNWLAEYKIEHFRNEGRSTNSRPVHEIVFADGRVNFGDTGWNTGFLLKQVRFTSDSRNESNHKVDFRMVEMEIRPAWSKSIDKHWFMFEGIYLGKTGYEKNRTTGGDNNIGGDGYGFRPYYRYQVSDRLSVNTDVKMLVEDKDARGADNGRFQFYEALVNVNYRVADNVHVGIEVFRKEGQDFNHNGTKTANVLEQELRPWVAWNMGKNNFLFKMEPQLRRIGGQDGYRETSKAQKYIFNYSYPIADRVYLVAEYFYRVEHDKKFWDRGVRDNKSYSDTTTHFGKLGINYIF
>NC_003143.1|WP_002213840.1|2774517_2775456_-|DUF1861-family-protein
MMRHAPPASVAQLFADYQKRTAHNTFSTGRLEFTGVGDKDVYNITAPFTSAGQVVIAGRVEARDSEHSTIVFFSEQQGQWAPVENAPTFQLQDPFFTRIEDELILGGVEINPHPDNPRQLIWHTVFFRGRDIHSLTRFASGPPGMKDIRLCHIQQGRIGVFTRPQGKIGGRGTIGYVEINNLEALTPETITSAELFEQQFNSEEWGGVNETHLLCDGTIGLLSHIACFDQHGRRHYYPGVFIFNPDTKNYTPIKIIAARDNFLPGATKRPDLVDVIFPGGLIVLPNNGWRLYVGASDAEAHWIDIEDPFSGF
>NC_003143.1|WP_002210196.1|2775482_2776538_-|glycoside-hydrolase-family-130-protein
MMRYSGNPLITPQDITPSHPGFKVECAFNAGITKLGDETIMLIRIAESVIPESEGITVVPLLMEISGHWQVTTRVFKHDDPAYDFSDPRLISDIADPSTVYLTSLSHLRVARSHDGVTFVVDDQPFIFPANGDEAFGCEDARITQIDGAYYINYSAVSAKGICTALAVTQDFTDVKRLGLIFCPDNRDACLFPEKINGKYMTLHRPAPKHFGKPEIWLASSLDLLHWGDHRHLLGTSQDPWDALKLGGGAQMLKTEKGWLQIYHGVDATQRYSLGALLLDLEQPTKILAKSPVPLLQPQAPYELHGFFGNVVFTCGALIENDSLRVYYGAADECMCLAEMPLAQLWQHLSV
>NC_003143.1|WP_002210197.1|2776684_2777509_-|carbohydrate-ABC-transporter-permease
MKKNINSLIIHLVMFSLALSWLYPYIWMVLSSFKQSADIYTTGLFGSAYSLDNYRFLFENSGRVEKPFLKTLFNSLFISTVVTVAVTLSSMFIGFALAKMQFKGQSLFRNLLFLQMVFPASMFIIPQFVLVRELGLLNTYSAMIVPFLMSSWGIFMISQSFQGTPNDYIHAAKIDNASLWQIMIYLMMPLNKAIIAIVALFTFVGTWDNFLWPLIVIQDESKMPLSVLLATFSKSYGVYVGPVIAGAVIQTIPIVVLFILFRKYFMQGMSLSLK
>NC_003143.1|WP_002210198.1|2777509_2778385_-|sugar-ABC-transporter-permease
MTFLKLKDKQVGSVLAASYLGYTSIFWFYPFIWLAVLSLTEWRFVGIPTFNGLNNFILVMQDPLFWKSMLNVMRFLMYYLPIVFISSFLFAFGLQKLKHGRTFVALSFLLANVSSGVAYSIVFSKIFSQNGPLNTFLYDWFGFTLPWLTSPDFAMLSIALVVTWKFVGYYGLILFSGLNSIPKEIYSAAELDNTRTIKRLFHITLPMINPQLIMVLVLAITVSFAIFTEPYLITGGGPLNSTTTPMIVMYETAFMKMQPSWAATMSIFIALISFGIILGVRKLLERKVEIV
>NC_003143.1|WP_002210199.1|2778493_2779780_-|carbohydrate-ABC-transporter-substrate-binding-protein
MLEKMKNTLISLAIASSCVVFTGCDNDTASAKNEKQDITLWIAPNNVQEAFWSEVVGEWNKQPDKKKVVFSTIPAAGSSEEAIMNAIASDRAPDISENIFTGFGSQLADLGQVVDLSTLDGYENLISTRQMTDIMDNWRYNGKNYILPIYMNPVLFWWRGDLLKEQGFSEVPKTYDEVYALSEKYTIPDKRYAIQATSGRNWWDRWFDFIALYYAQSDGKPYIANQQASYDNQAGRDVLDFMHTLFSKKWTLYDFGQDDPLVTGKVLGAVRGPWDISRYQQQYPEILKHIKMGPMLVKEQQDKPHTFADGKGLVLFSHSKVKPEAWEFIQWVFSQPKFDKRWMELTGMPPARADLLTNPFFAEYYQEHPYAAAYAEYVNVAIPPVSSGETVEIQRSMTQMIEKTAFNTATPDEALQQSIKEVNAILKP
>NC_003143.1|WP_002210200.1|2780051_2781092_+|LacI-family-DNA-binding-transcriptional-regulator
MTTGKKRETLKTIAETLNVTHTTVSNVFNRPEKVSPELREKILAYAESINYHGPAGAGRFLRTGKCGTLGVIFNDNLSYVFSDRHDIALMRGIAEECEKNGINIALMPLKTNNALKKRMMGALVDGYILNATYNNDEVVQAALTSGLPVITTDIKLQNFTCVSIDDGAAMQAICHHLLAAGHKKFGIVSFPVKRLPGELTSLAEFSTDYDNGVAFGRISACITALSDAGIDLHTSYVAEQPHSETGGEKAAKALLAKEPGISAIICLSDRFAFGVYQFCQDHNIPVPGQIAITGFDDIDIQDPPVGLTTIRQPTVLKGREAARALISGQLDNDISLDFELVVRDSA
>NC_003143.1|WP_002210201.1|2781108_2782497_+|phosphomannomutase/phosphoglucomutase
MEKLTCFKAYDIRGKLGSELNEEIAYRIGRAYCQWLKPAKVVVGGDARATSVELKNALAKGLMDGGADVIDIGMVGTEEVYFATRFYGVDGGIQVTASHNPIDYNGMKLVKKDAQPISGDNGLYEIQRLAQDNHFAPPGVRGQLETQLVREHYVEHLLSYIDLNALLPMKIVVNAGNGAAGPTLDALEAALAKRKVPISFIKINHQPDSSFPNGIPNPMLPENQWSTRQAVCEHQADLGIAWDGDFDRCFFFDHLGNFIEGYYIVGLLAEKFLLTNNMGKATHNTDKIIHDPRLTWNTIDIVQTLNGTAIESKTGHAFIKDAMRHHDAVYGGEMSAHHYFREFGYCDSGMIPWLLVIELLSKKTTSLFSLIESRKAKFPVSGELNFTVSDPKTKIQQIKQFYADSAIHVTGIDGLSMEFEHWRFNLRSSNTEPLVRLNIETRGDVTLLEQKTAQLTQLLYPK

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Crispr_ID: NC_003143_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003143_4

2895283-2895613

Orphan

I-F

Consensus_repeat	Method
GTTCACTGCCGCACAGGCAGCTTAGAAA	PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRT

5 spacers

The CRISPR arrays of NC_003143_4

>merge|NC_003143|4|2895283-2895613|PILER-CR,CRISPRCasFinder,CRT
GTTCACTGCCGCACAGGCAGCTTAGAAACCGGCGGTGATGGCAATTCTACGTGGGTTCGTTGTTCACTGCCGCACAGGCAGCTTAGAAACTGATACAATCATCCTATTTGTCCTATCCAGAAGTTCACTGCCGCACAGGCAGCTTAGAAAGACAAGAACCGAATCTTTCGCCGTGCCGTAAAGTTCACTGCCGCACAGGCAGCTTAGAAACCGAAATCATCAGATGTAATTAAGATTTTTGCTGTTCACTGCCGCACAGGCAGCTTAGAAAAGACTGATGCAAGATGGCGGTATGCGTACAGAGTTCACTGCCGCACAGGCAGCTTATAGA

>NC_003143|4|3|2895283-2895553|PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGGCGGTGATGGCAATTCTACGTGGGTTCGTT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CTGATACAATCATCCTATTTGTCCTATCCAGAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GACAAGAACCGAATCTTTCGCCGTGCCGTAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGAAATCATCAGATGTAATTAAGATTTTTGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA

>NC_003143|4|4|2895283-2895613|CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGGCGGTGATGGCAATTCTACGTGGGTTCGTT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CTGATACAATCATCCTATTTGTCCTATCCAGAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GACAAGAACCGAATCTTTCGCCGTGCCGTAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGAAATCATCAGATGTAATTAAGATTTTTGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	AGACTGATGCAAGATGGCGGTATGCGTACAGA
GTTCACTGCCGCACAGGCAGCTTATAGA

>NC_003143|4|3|2895283-2895613|CRT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGGCGGTGATGGCAATTCTACGTGGGTTCGTT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CTGATACAATCATCCTATTTGTCCTATCCAGAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GACAAGAACCGAATCTTTCGCCGTGCCGTAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	CCGAAATCATCAGATGTAATTAAGATTTTTGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	AGACTGATGCAAGATGGCGGTATGCGTACAGA
GTTCACTGCCGCACAGGCAGCTTATAGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_003143.1\|WP_002210304.1\|2906421_2908392_+\|5-dehydro-2-deoxygluconokinase	unknown	unknown	gnl\|CDD\|378281
NC_003143.1\|WP_002214721.1\|2908406_2909465_+\|myo-inosose-2-dehydratase	unknown	unknown	gnl\|CDD\|275172
NC_003143.1\|WP_002210288.1\|2879733_2880936_+\|acetate-kinase	unknown	unknown	gnl\|CDD\|234680
NC_003143.1\|WP_002359655.1\|2898337_2900263_+\|3D-(3,5/4)-trihydroxycyclohexane-1,2-dione-acylhydrolase-(decyclizing)	unknown	unknown	gnl\|CDD\|226471
NC_003143.1\|WP_002209743.1\|2885811_2887020_-\|IS256-family-transposase	unknown	unknown	gnl\|CDD\|225865
NC_003143.1\|WP_002210300.1\|2901667_2902597_+\|substrate-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|380623
NC_003143.1\|WP_002210302.1\|2904204_2905233_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224093
NC_003143.1\|WP_002210306.1\|2909474_2910290_+\|5-deoxy-glucuronate-isomerase	unknown	unknown	gnl\|CDD\|226241
NC_003143.1\|WP_002210287.1\|2878856_2879312_-\|DUF412-domain-containing-protein	unknown	unknown	gnl\|CDD\|179338
NC_003143.1\|WP_002216059.1\|2883522_2884557_-\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224525
NC_003143.1\|WP_002210297.1\|2896776_2898303_+\|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|143404
NC_003143.1\|WP_002210291.1\|2884923_2885367_+\|PTS-sugar-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|238129
NC_003143.1\|WP_002214717.1\|2887053_2887932_-\|transglycosylase-domain-containing-protein	unknown	unknown	gnl\|CDD\|273954
NC_003143.1\|WP_002214718.1\|2894373_2894922_-\|DUF1440-domain-containing-protein	unknown	unknown	gnl\|CDD\|226008
NC_003143.1\|WP_002210303.1\|2905256_2906390_+\|Gfo/Idh/MocA-family-oxidoreductase	unknown	unknown	gnl\|CDD\|223745
NC_003143.1\|WP_002210301.1\|2902645_2904193_+\|sugar-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224053
NC_003143.1\|WP_002210294.1\|2887988_2893967_-\|alpha-2-macroglobulin-family-protein	unknown	unknown	gnl\|CDD\|225248
NC_003143.1\|WP_002210296.1\|2895616_2896471_-\|MurR/RpiR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224651
NC_003143.1\|WP_002210293.1\|2885535_2885790_+\|PTS-sugar-transporter-subunit-IIB	unknown	unknown	gnl\|CDD\|99905
NC_003143.1\|WP_002265141.1\|2881118_2883257_+\|phosphate-acetyltransferase	unknown	unknown	gnl\|CDD\|235537

Protein	Function_ID	Function_description	E-value
NC_003143.1\|WP_002210304.1\|2906421_2908392_+\|5-dehydro-2-deoxygluconokinase	gnl\|CDD\|378281	pfam09863, DUF2090, Uncharacterized protein conserved in bacteria (DUF2090). This domain, found in various prokaryotic carbohydrate kinases, has no known function.	0
NC_003143.1\|WP_002214721.1\|2908406_2909465_+\|myo-inosose-2-dehydratase	gnl\|CDD\|275172	TIGR04379, myo-inositol_catabolism_protein, myo-inosose-2 dehydratase. Members of this family include the enzyme myo-inosose-2 dehydratase, product of the gene iolE, as found in inositol utilization cassettes in many species. [Energy metabolism, Sugars].	4.28689e-165
NC_003143.1\|WP_002210288.1\|2879733_2880936_+\|acetate-kinase	gnl\|CDD\|234680	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed.	0
NC_003143.1\|WP_002359655.1\|2898337_2900263_+\|3D-(3,5/4)-trihydroxycyclohexane-1,2-dione-acylhydrolase-(decyclizing)	gnl\|CDD\|226471	COG3962, COG3962, Acetolactate synthase [Amino acid transport and metabolism].	0
NC_003143.1\|WP_002209743.1\|2885811_2887020_-\|IS256-family-transposase	gnl\|CDD\|225865	COG3328, COG3328, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.39969e-152
NC_003143.1\|WP_002210300.1\|2901667_2902597_+\|substrate-binding-domain-containing-protein	gnl\|CDD\|380623	cd19968, PBP1_ABC_IbpA-like, periplasmic sugar-binding protein IbpA of an ABC transporter and similar proteins. The periplasmic binding protein (PBP) IbpA mediates the uptake of myo-inositol by an ABC transporter that consists of the PBP IbpA, the transmembrane permease IatP, and the ABC IatA. IbpA shares homology with a family of pentose/hexose sugar-binding proteins of the type 1 periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge.	4.31227e-120
NC_003143.1\|WP_002210302.1\|2904204_2905233_+\|ABC-transporter-permease	gnl\|CDD\|224093	COG1172, AraH, Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism].	8.15893e-97
NC_003143.1\|WP_002210306.1\|2909474_2910290_+\|5-deoxy-glucuronate-isomerase	gnl\|CDD\|226241	COG3718, IolB, Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism].	3.14642e-169
NC_003143.1\|WP_002210287.1\|2878856_2879312_-\|DUF412-domain-containing-protein	gnl\|CDD\|179338	PRK01816, PRK01816, hypothetical protein; Provisional.	1.1254e-94
NC_003143.1\|WP_002216059.1\|2883522_2884557_-\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|224525	COG1609, PurR, Transcriptional regulators [Transcription].	1.95185e-89
NC_003143.1\|WP_002210297.1\|2896776_2898303_+\|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase	gnl\|CDD\|143404	cd07085, ALDH_F6_MMSDH, Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2. Methylmalonate semialdehyde dehydrogenase (MMSDH, EC=1.2.1.27) [acylating] from Bacillus subtilis is involved in valine metabolism and catalyses the NAD+- and CoA-dependent oxidation of methylmalonate semialdehyde into propionyl-CoA. Mitochondrial human MMSDH ALDH6A1 and Arabidopsis MMSDH ALDH6B2 are also present in this CD.	0
NC_003143.1\|WP_002210291.1\|2884923_2885367_+\|PTS-sugar-transporter-subunit-IIA	gnl\|CDD\|238129	cd00211, PTS_IIA_fru, PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation.	1.55185e-43
NC_003143.1\|WP_002214717.1\|2887053_2887932_-\|transglycosylase-domain-containing-protein	gnl\|CDD\|273954	TIGR02073, Includes:_Penicillin-insensitive_transglycosylase, penicillin-binding protein 1C. This subfamily of the penicillin binding proteins includes the member from E. coli designated penicillin-binding protein 1C. Members have both transglycosylase and transpeptidase domains and are involved in forming cross-links in the late stages of peptidoglycan biosynthesis. All members of this subfamily are presumed to have the same basic function. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan].	1.09445e-118
NC_003143.1\|WP_002214718.1\|2894373_2894922_-\|DUF1440-domain-containing-protein	gnl\|CDD\|226008	COG3477, COG3477, Predicted periplasmic/secreted protein [Function unknown].	2.91652e-69
NC_003143.1\|WP_002210303.1\|2905256_2906390_+\|Gfo/Idh/MocA-family-oxidoreductase	gnl\|CDD\|223745	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only].	2.07432e-69
NC_003143.1\|WP_002210301.1\|2902645_2904193_+\|sugar-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224053	COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism].	0
NC_003143.1\|WP_002210294.1\|2887988_2893967_-\|alpha-2-macroglobulin-family-protein	gnl\|CDD\|225248	COG2373, COG2373, Large extracellular alpha-helical protein [General function prediction only].	0
NC_003143.1\|WP_002210296.1\|2895616_2896471_-\|MurR/RpiR-family-transcriptional-regulator	gnl\|CDD\|224651	COG1737, RpiR, Transcriptional regulators [Transcription].	1.17523e-68
NC_003143.1\|WP_002210293.1\|2885535_2885790_+\|PTS-sugar-transporter-subunit-IIB	gnl\|CDD\|99905	cd05563, PTS_IIB_ascorbate, PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.	1.4281e-27
NC_003143.1\|WP_002265141.1\|2881118_2883257_+\|phosphate-acetyltransferase	gnl\|CDD\|235537	PRK05632, PRK05632, phosphate acetyltransferase; Reviewed.	0

>NC_003143.1|WP_002214718.1|2894373_2894922_-|DUF1440-domain-containing-protein
MSEKRVNLQVIAWATIIGGFVSSLVKSGTEVNMPPRVVGEISPPAANIDAWLGWLGINSHSMDYVYQGVTISGTVVLYHWLFSFVFAFVYVLLSAYWPKVRLWYSAAYGLSITVAIHGVLIPALGFRHPAYLAGETGWLWNLNGYELWSEIIGHLCWSASLEICLVAVLAFFSKPIKGIWAN
>NC_003143.1|WP_002210294.1|2887988_2893967_-|alpha-2-macroglobulin-family-protein
MDLLRFLLISPFALIKGLYRLSAYLLRLVGRLLRPVVGNLNWRAPQWMTKTANGLHCAFNRSEQWVAKHPKGISAAIVLLMAAASAAFYGYHWYLNRPQPIEPAPMVYQETSIRVSAPRTVNYQAQKPEAQPLSLNFMHSAAPITAMGQVVDQGISLTPAIEGEWKWATERTLVFTPKKAWPMGANYQITIDTEKLLAPQIKLNQTELNFTTPAFAYQLEKAEYYQDPQEAQKRSTIFHVQFNAPVDVASFEKQILLGLVEGKSKSEKKLNFSVVYDEKKLNAWIHSQPLMPMDKGGSVHLSINKGVNASVAATPTTQAQNKWVSVPNLYSLAVNSINATLVESDNNNGERALIIAISDAVKDKEIKNAVKAWLLPQHNFQAKESAKTSTDFYPWDMDDIDDNLLQQSTPLALTLNEAEQEYQPIFSFKFDAPSYRTLLIEVNNSLTSVGGYKMPEKIYQIVRVPDYPKTLRFMSQGSLLSMQGDKQISVAARNMTGMKLDIKRVIPSQLQHIVSFKSSEYSSAHFNRLSDEYFTEHFQYQTALNNDNPGEINYQGVDLSRYLANNPSARRGVFLLTLSAWDPEKRDNQQHSEEDYDEDQEWVGDSRFVVITDLGIITKQSQDRSRDVFVQSIHSGLPAADAKVSVVAKNGVVLLSQITDSKGHVHFPALDAFKNERQPVMFLVEKEGDVSFLPTRATYDRNLDFSRFDIDGEETPSDPRTLSSYLFSDRGVYRPGDRFNIGLITRTANWATALDGVPLRAEIRDPRDTLMSTLPITLDSSGFNELSYTTGENSPTGEWNVYLYLVGKNNETSMLLGHTTVNVKEFEPDRLKVQLQLTPERQQGWVKPQELQANINVQNLFGTPAQERRVTSRLILRPMYPSFAPFPDYLFYENRHNSDGFETELEEQTTDLQGMATIPLDLKSYADATYQLQLLSEAFEAGGGRSVAATARVLVSPYDSLVGVKADGDLSYINRDAVRKLNIIAVDPSLNKIALPDLSLSLIEQKYISVLTKQDSGVYKYQSRLKEQLVSEQPLQISPTGTDFTLVTQQPGDFILVVKDSQGQVLNRISYTVAGNANLTRSLDRNTELKLKLNQAEYLQGEEIEIAINAPYAGSGLITIEKDKVYSWQWFHSDTTSSVQRIRIPPAMEGNGYINVQFVRDVNSDEIFMSPLSYGVMPFKISTKARQAAIELASPSVIKPGEVLPIKVTTDSPQRVVVFAVDEGILQVARYRLKDPLDYFFRKRELSVQSAQILDLILPEFSKLMALTSAPGGDAGEGLDLHLNPFKRKQDKPVAYWSGITEVNGETTFNYPIPDYFNGKIRVMAISATPDRIGKVQTSTTVRDNFILTPNVPAMVAPGDEFDVTVGVSNNLQGLKGKAVDITVRLTPPPQLEVVGEAQHSLSLAEKRETLVSFRLRARSALGDAPLVFDASYGSQSSRRTVSTSVRPAMPFRTQSVMGRMEGNKHTVTNLRQMFDNYAQRQATASHSPLVLTQGLARYLADYPYYSSEQIVSRSIPLIMQSKHPEMDSALNQNEVRDQLKNMLRILSSRQNSTGAIGLWHASPTPDPFVTPYVVQFLLEAKSAGYSLPNDILEGANNALRLLAARPYDDLYSLRLRAFAVYLLTLQGEITTNTLASVQSTLQQLYPDSWQTDLSAIYLASSYRLLKMDDEANKLLQPTWKQLGKAYSKAWWTQNYFDPLVQDATRLYLITRHFPEKVSSIPPQALENMVLALRDEHYTTYSSAMSILALESYTSQVAAQQDTPETLQIIEISKSKGIDPNVISTLNGLFVQGDFTGEAKAIQFNNYASAPAWYVVNQSGYDLQPPKDAISNGLEISRSYTDEQGKPVTQVTLGQKVNVHLKIRANAKQGQNNLAIVDLLPGGFEVVQQTAPEPEFYDNQDDQDEETGSGWQSPLMVSGSSWYPDYSDIREDRVIIYGSASTDVKEFIYQIKSTNTGRFVVPPAYGEAMYDRNVQALSVGKGHILVVPPEAK
>NC_003143.1|WP_002214717.1|2887053_2887932_-|transglycosylase-domain-containing-protein
MRIPTLMATKRLLQNILMALFLLALLVIGFRLWPHPPLSQGLPLSTAYYDRHGTLLRLSLANDDRYRLWTPLEEISPLVIQGIQLHEDRGFYYHPGVNPISLLRGFWQSYVQGGRQQGGSTLTMQLARMHWHLNTRSPTGKLRQIARAIQLELSYSKHDILEAYLNYAPYGRNIESIAAASLIYFDKKPQQLTLPEALTLAVLPQSPSYRIDPTTGVLGSALTQARNRLFVRWQQTYPTDSSQMALFQLPLSLRQPEKMPYIAPHFIEQIRRQNQQLANTRDCKQYCVIACF
>NC_003143.1|WP_002209743.1|2885811_2887020_-|IS256-family-transposase
MDEKKLKALAAELAKGLKTEADLNAFSRMLTKLTVETALNAELTEHLGHEKNTPKSGSNTRNGYSSKTLLCDDGEIELNTPRDRENTFEPQLIKKNQTRITQMDSQILSLYAKGMTTREIVATFKEMYDADVSPTLISKVTDAVKEQVAEWQNRQLDALYPIVYMDCIVVKVRQNGSVINKAVFLALGINTEGQKELLGMWLAENEGAKFWLSVLTELKNRGLQDILIACVDGLKGFPDAINSVYPQTHIQLCIIHMVRNSLKYVSWKDYKAVTSGLKMVYQAPTEEAALMALDKFAEAWDDKYPQISKSWRTHWENLNTFFGYPPDIRKAIYTTNAIESVNSVIRAAIKKRKVFPTDDSVRKVVYLAIKDASKKWSMPIQNWRLAMSRFIIEFGDRLSDHL
>NC_003143.1|WP_002210293.1|2885535_2885790_+|PTS-sugar-transporter-subunit-IIB
MKITVVCGNGLGTSLMMEISIKSILKELAVSAEVDHVDLGSAKGTPSDIFIGTKDIAEQLVAQAVGGKIVALDNMIDKKARACP
>NC_003143.1|WP_002210291.1|2884923_2885367_+|PTS-sugar-transporter-subunit-IIA
MLKTLLTSDVIQVVSQAKDWRDAIAISCQPLIDNGAVEARYVEAIYRSHEAIGPYYVVGPGIAMPHARPEDGVNRLSLALTVITEGVTFNAEGNDPVKLLIVLAATDSNSHIEAISQLAQLFDTASDVQALLNAKTPQDILSVIARY
>NC_003143.1|WP_002216059.1|2883522_2884557_-|LacI-family-DNA-binding-transcriptional-regulator
MEKIRKRRNTGRVTLQEVADYAGVGSMTVSRALRTPEQVSDKLREKIEQAVEKLGYIPNRAAGALASGHSDTVAVLIPSLTDKASSRFMQALQQILNKNEFQLLLGCHEYNQRKEAEILMTLLQSHPAAVVIFGSQLADKTYQILERTNIPIVNVVGSYFKGAKITLEAAFFESAYELTRHLLERGYQHIGYLGAHRDNQLQRQQLNGWHKSMLEHYKNADQTVTTPDAASLQFGRYALTEILLRQPELDAVICSHEDIALGVLFECQRRLLKIPSGIAVACLDGSESCDQTHPTLTSMRIDYKKMGKEAGKMLIDMLNEDDAGVKSVPLSQSFNYKFEPRQST
>NC_003143.1|WP_002265141.1|2881118_2883257_+|phosphate-acetyltransferase
MLIPTGTSVGLTSVSLGVIRSMEQKGVSLSVFKPIAQPRAGNDAPDQTTTIIRANSSITAAEPLNMNYVETLLSSNQQDVLMEEIVARYHENTKDAEVVLVEGLVPTRKHQFANALNYEIAKTLNAEIVFVIALGNDSPDQLKERIELARSSFGGSKNKNITGVIINKLNAPVDEQGRTRPDLSEIFDDSTKASVANIDPSQLFANSPIPVLGCVPWSFELIATRAIDMAKHLNARIINEGDIKTRRVKSVTFCARSIPHMLEHFRPGSLLVTSADRPDVLVSACLAAMNGVEIGAILLTGGYAIDDRINNLCERAFQTGLPVFMVDTNTWQTSLSLQSFNLEVPADDHERVEKLQNYVASHISSEWIDSLTAASERPRRLSPPAFRYELTELARKAGKRIVLPEGDEPRTIKAASICAERGIATCVLLGNPEEIQRVATSQGVELGKGVEIIDPVAVREQYVPRLVELRKSKGMTEVVAREQLEDNVVLGTLMLEKGEVDGLVSGAVHTTANTIRPPLQLIKTAPGSSLVSSVFFMLLPDQVLVYGDCAINPDPTAEQLSEIAIQSADSAAAFGIEPRVAMISYSTGNSGAGSDVEKVREATRLAQEKRPDLIIDGPLQYDAAIMADVAKSKAPNSPVAGRATVFIFPDLNTGNTTYKAVQRSADLISIGPMLQGMRKPVNDLSRGALVDDIVYTVALTAIQSAQADSAAS
>NC_003143.1|WP_002210288.1|2879733_2880936_+|acetate-kinase
MSSKLVLVLNCGSSSLKFAIIDATNGEEHISGLAECFHLPEARIKWKVDGGKQEAALGAGAAHSEALNFIVNTILAQKPALSAQLTAIGHRIVHGGEKFTSSVIVTEDVIQGIKDSIPFAPLHNPAHLIGIAEALKSFPNLADKNVAVFDTAFHQTMPEESYLYALPYSLYKDHGIRRYGAHGTSHFYVSQEAAKILNKPLEELNVITCHLGNGGSVTAVRNGKCVDTSMGLTPLEGLVMGTRSGDLDPAIIFHLHDAMGMSVDQINTLLTKESGLLGLTEVTSDCRYVEDNYATKADAKRAMDVFCHRLAKYIGSYTALMDGRLDAVVFTGGIGENAAMVRELTLDKLGLLGFEIDHERNMAARFGKSGTITKDSSRLALVIPTNEELVIAQDAARLTA
>NC_003143.1|WP_002210287.1|2878856_2879312_-|DUF412-domain-containing-protein
MTIKPSDSVSWFQVLQRGQHYMKTWPADKRLAPVFPENRVTVVTRFGIRFMPPLAIFTLTWQIALGGQLGPAIATALFACGLPLQGLWWLGKRAITPLPPTLLQWFHEVRHKLFEAGQAVAPIEPIPTYQSLADLLKRAFKQLDKTFLDDL
>NC_003143.1|WP_002210296.1|2895616_2896471_-|MurR/RpiR-family-transcriptional-regulator
MTTASNLSELQQQIRDRYDNLSKRLQQVSRYVLDNTNSVAFDTVAVIAERADVPPSTLIRFANAFDFSGFNEMKQLFRMNLVEETASYTDRARLFRAMESEAVPETPLGILQEFARSNAQALQQLAARTEPEMLQRAVELLAQADTIYVVGLRRSFSVAAYLTYALSHLECRPVQLHGLGGMLREQVNSIKARDIVVSISFSPYAEETVMVSEIAASAGARQIVITDSQISPLATFSDLCFVVKEAQVDAFRSQSATLCLVQSLVVALAYQQEAQAGAALAHRQ
>NC_003143.1|WP_002210297.1|2896776_2898303_+|CoA-acylating-methylmalonate-semialdehyde-dehydrogenase
METVANFINGKCVFSCGNSVTSGSPRAQAIFNSATGEPIRQVMMSTAQETEQAITAAQQAFASWSRQAPLKRARVMFRFKSLLEQHLDALAQLISEEHGKVYSDAVGELTRGLEVVEFACGIPHLQKGEHSANVGTGVDNHSLMQPLGVCVGITPFNFPAMVPMWMFPIALATGNTFVLKPSEKDPSLAVRLAQLLTEAGLPDGVFNVVQGDKTAVDVLLTDPRVQAVSFVGSTPIAEYIYQTASAHGKRCQALGGAKNHCILMPDADMDMAASAIMGAAYGAAGERCMALSVVLAVGDETADNLCARLEQQISTLRVGPGLAQEPENDMGPLISAPHRAKVLGYIDSGVAQKATLRIDGRGLKVAGHEQGYFVGPTLFDHVTPAMTIYQEEIFGPVLSVVRIADYRSAVDLINRHEYGNGTAIFTRDGGTARRFCEEVQVGMVGVNVPIPVPVAFHSFGGWKRSIFGPLNVHGNDGVRFYTRMKTITARWPEAQHDQGAAFSMPTLG
>NC_003143.1|WP_002359655.1|2898337_2900263_+|3D-(3,5/4)-trihydroxycyclohexane-1,2-dione-acylhydrolase-(decyclizing)
MKTVRMTMAQALVRFLNQQYVAIDGQEVAFVHGVMTIFGHGNVLGIGQALEENPGHLQVHQGCNEQGMAHMAIGFAKQYRRQRIYAVSSSIGPGAANMVTAAATATANRIPLLLLPGDIYASRQPDPVLQQIEQYHDLSISTNDCFRPVSRYWDRINRPEQLMSAMLSAMRVLTDPADTGAVTLCLPQDVQGEAWDYPASFFERRVHRIERRPPDTRRLSDALSLIARKRRPLVVCGGGVRYSGAHEAFRAFVENAQLPFTETQAGKGALPSDHPLNLGGIGVTGGLAANRLAPQADLVIGIGTRLTDFTTGSKALFSHPEVAFLLLNVAEFDALKLDATALIADARVGLEALTEGLAGYRTAWQGDIIEAKAAWCDECQRLWSRTWRPDEVPEVAGHLDDSLQEYAEVLNTTLTQTRVLGLINQHIEDDAIVVGAAGSLPGDLQRLWQVKTADTYHLEYGYSCMGYEIAAAIGAKIAMPHQPVYAMVGDGSYMMLHSELHTAVQEGLKITVLLFDNAGFGCINNLQMGHGMGSFCTESRHRNHESGQLNGPLICVDFAQNAESYGCRAWRVHDEPSLLAALAASRDHPGPVLLDIKVLPKSMTHDYASWWRTGDAQIARSPAVQQAAERTQMKVKRARQY
>NC_003143.1|WP_002210300.1|2901667_2902597_+|substrate-binding-domain-containing-protein
MKKLILAALIVFTSGVAFAENEQIVFSTPNLAMPFEVHMQRTAVKTAKALGVKLQVLDGQGSSPKQVADLENAITRGAQGFIVSPNDINAISSAVEEIQQAKLPVVTLDRSVESEKKVPHFGANNYKGGEAIANYVKSMFPNGAEIVLLTGQPGSSSNIERTKGIRDSLKTGGDKYRIVVDQTGNWMRSEGMRIIESVLPSLPKPPQVILSANDDMALGAIEALQSHGMKPGEIMVTGFDAVPEALARVREGWMAVTADQRPGYAVTTAMNQLVANIRDQKAITGADFLPTMITKENLDQAERVSEAGK
>NC_003143.1|WP_002210301.1|2902645_2904193_+|sugar-ABC-transporter-ATP-binding-protein
MSQPLLKITDMAKSFSGVWALSNVQLTLEQGEIHALLGENGAGKSTLLKALSGAQPQTHGEIWFNGEMLALDDSPVERQNKGIITIYQEVNLLPNMTVAENMFLGREPRRRQVFVDEKAVNQEAQAILDYLQLNVSPTTAVARLSIAQQQMVEIARALTLNAKLIVMDEPSAALSDSEVESLHRVVRELKGRGVSIIYVTHRLHEVFQLCDRFTVFQDGRYTGSDEVAGTNVEKIIRLMVGRDVVFNRRPASETHHQDQPIRLSVQGLCREKPPLDPHGVALKDISFHVHAGEVLGIAGLVGAGRTEVARCLFGAGAFTSGNFEIDGVPYQPRDPMFALEQGIALVPEDRKKEGAVQGLSIRDNLTLSSLAGLLQWRFFVNTRKEDQLIETYRLALQIKMVNSEQAVRKLSGCNQQKVILARCMALNPRILIVDEPTRGIDVGTKSEVHQVLFDMAKQGVAVIVISSDLPEVLAVSDRIITLSEGRVTGEIHGDDASEERLMTMMTINHNALNAA
>NC_003143.1|WP_002210302.1|2904204_2905233_+|ABC-transporter-permease
MLQPLSKPQASVKSAMRFDPITFFERFGVLIFMFLLLIFFQLQNSNFLSERNIFNILTEVSIYGIMAVGMTFVILTAGIDLSVGSILAVSAMTAAYVIKGDNFTTIDPNAWGGMSWLIGLSICLAMGTLIGFLQGLGVTRLRLPPFIVTLGGMTIWRGLTLVINDGAPIAGFDAGYRWWGRGDLLGISIPIWIFAIVAIAGYLALHKTRWGRFVYAIGGNPEAARLAGVNVKRVLVSVYVVIGCLAGLAGFILSARLGSAEAVAGISFELRVIASVVIGGTSLMGGYGRIGGTIIGSIIMGILINGLVLMNVSAYYQQIITGLIIVLAVAFDTYAKNRRGAL
>NC_003143.1|WP_002210303.1|2905256_2906390_+|Gfo/Idh/MocA-family-oxidoreductase
MKEVRIGLIGTGYIGKAHAIAYAQAPTVFELRGKLVREMVAEVSPALAAQRAQAFGFNRFTCDWRELVADPAIDVVDICSPNYLHKEMALAAIHHGKHVYAEKPLALNARDASEMAAAATRAGVKTLVGFNYIKNPSAKLAKEIIERGEIGEVIHFYGTHNEDYMADPNTPIHWHCLHATAGLGALGDLAAHIVSMAQYLVGEITQVCGDLKTVVVTRPASVGSSARVAVENEDQAHAMVRFVNGAQGVIEASRVACGRKMGLSYMITGTQGAISFTQERMAELKLYLHNDPVNRQGFRTLLVGPAHPEYAAFCMAAGHGIGFNDQKTVEVRDLIDGIAMDTPLWPDFAEGWKVSRILDAIALSHQDSRWVNVTDIV
>NC_003143.1|WP_002210304.1|2906421_2908392_+|5-dehydro-2-deoxygluconokinase
MSVEKQFSVSAEKTCNTENKCNTEKKFDVICMGRIAVDLYGQQIGARLEDVASFAKYLGGSSGNVAYGSARQGLRSSMLARVGDEHMGRFLREELHQVGCDTSHLTTDKKRLTALVLLSIKDRDTFPLIFYRDNCADMAITAQDFSEQYIASARSLAITGTHLSHPNTREAVLTALRYARRNGVRTVLDIDYRPVLWGLTSLGDGETRFIESHQVTAELLAVFNLFDVIVGTEEEFHIAGGSTNTLDALRGVREVSDAALVCKRGALGCSVYTEAIPQTLDEGLTVSGVRVKVLNVLGAGDAFMSGLLRGYLNDEGWPQACRYANACGALVVSRHGCAPAMPSKIELDNYLARADAVVRPDLDVHLNHLHRVTTRRRQWPELCVMAFDHRSQLEEMALQCGADLCHISTLKTLILQASREAVHTAGLQGKAGLLCDGTFGQDALNAITGAGWWIGRPIELPGSRPLAMEHGNIGSQLIGWPQEHIVKCLVFFHPEDAYSLRLEQEQKIIEVYRACCQSGHELLLEVILPAGMPRSDELYLRAISRFYNLGVYPDWWKLPPLASEGWAALNKLIERRDPHCRGVVILGLDASLEALRTGFNAAAGYPIVKGFAVGRTLFGDASLAWLKRDIDDTQLIARIRDNYLQLITLWRERGQK
>NC_003143.1|WP_002214721.1|2908406_2909465_+|myo-inosose-2-dehydratase
MTMVDQRTAVEPKTAVDQTTEVVRKAEVNQKIGIVRKIDIVRKTETVRKTEADRHTTAVQLGINPLTWTNDDLPSLGAETSLETCLSEGKEAGFAGFELGNKFSREAGVLGPILEHHQLKLVSGWYSGRLLERSVEEEIVAVRSHLALLRELGAKVMVFAEVSGCIHGEQQTPVHLRPRFPPARWAEYGAKLTAFARYTQALGVQIAYHHHMGTVIESAQDIDNLMIHTGEEVGLLLDTGHLTFAGADPLAVAQRWIARINHVHCKDVRTSVLADVKNRKTSFLDAVLSGVFTVPGDGGVDYPPIMALLKQHGYQGWLVVEAEQDPNVAHPMTYARMGYHNLSRLAHNAGLI
>NC_003143.1|WP_002210306.1|2909474_2910290_+|5-deoxy-glucuronate-isomerase
MSRLLSRRQAPDERGLTQRITPAQAGWGYVGFEVYELNEGQPLTLTAVPDERCLVLIAGRASISTPSAQFPNIGDRMSPFERHKPWAVYVTPGEAVQVQAITPLELAVCSAPGKGTYPTRLISPEDIGAEARGKGHNQRYVHNILPEDHPADSLLVVEVYTNEGASSSYPSHKHDTDNPPHETYLEETYYHRLNPEQGFCMQRVYTDDRSLDECMAVYNREVVMVPRGYHPVATMAGYDSYYLNVMAGPVRKWIFSWENDHVWINHNYPIT

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Crispr_ID: NC_003143_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_003143_5

4417249-4417360

Orphan

Consensus_repeat	Method
AAAGCACATTTGAGCAGCGAGTGAAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_003143_5

>merge|NC_003143|5|4417249-4417360|CRISPRCasFinder
AAAGCACATTTGAGCAGCGAGTGAAGCCAGACCATCATCCTTAGGCTTTTAATACGTTTTTGATTTTGAATGGGTTGTTGACGTCCAAAGCACATTTGAGCAGCCGAGTGAA

>NC_003143|5|5|4417249-4417360|CRISPRCasFinder
AAAGCACATTTGAGCAGCGAGTGAAG	CCAGACCATCATCCTTAGGCTTTTAATACGTTTTTGATTTTGAATGGGTTGTTGACGTCC
AAAGCACATTTGAGCAGCCGAGTGAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_003143.1\|WP_002209487.1\|4408918_4410292_-\|argininosuccinate-lyase	unknown	unknown	gnl\|CDD\|179883
NC_003143.1\|WP_002209500.1\|4430387_4432571_-\|1,4-alpha-glucan-branching-protein-GlgB	unknown	unknown	gnl\|CDD\|235445
NC_003143.1\|WP_002215335.1\|4410458_4411235_-\|acetylglutamate-kinase	unknown	unknown	gnl\|CDD\|239782
NC_003143.1\|WP_002223919.1\|4412655_4413819_+\|acetylornithine-deacetylase	unknown	unknown	gnl\|CDD\|235346
NC_003143.1\|WP_100067904.1\|4417570_4418925_+\|IS3-like-element-IS1661-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_003143.1\|WP_002209491.1\|4414192_4416829_+\|phosphoenolpyruvate-carboxylase	unknown	unknown	gnl\|CDD\|234570
NC_003143.1\|WP_002209483.1\|4403014_4404823_-\|type-I-secretion-system-permease/ATPase	unknown	unknown	gnl\|CDD\|226969
NC_003143.1\|WP_002209485.1\|4405827_4408320_-\|TonB-dependent-hemoglobin/transferrin/lactoferrin-family-receptor	unknown	unknown	gnl\|CDD\|273807
NC_003143.1\|WP_002209489.1\|4411400_4412405_-\|N-acetyl-gamma-glutamyl-phosphate-reductase	unknown	unknown	gnl\|CDD\|234761
NC_003143.1\|WP_002209482.1\|4401610_4402939_-\|HlyD-family-type-I-secretion-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|130902
NC_003143.1\|WP_002209498.1\|4425459_4426890_-\|glycogen-synthase-GlgA	unknown	unknown	gnl\|CDD\|234809
NC_003143.1\|WP_002209484.1\|4404988_4405606_-\|heme-acquisition-protein-HasA	unknown	unknown	gnl\|CDD\|368907
NC_003143.1\|WP_002209494.1\|4419279_4419549_-\|hypothetical-protein	unknown	unknown	unknown
NC_003143.1\|WP_002209497.1\|4422843_4425291_-\|glycogen-phosphorylase	unknown	unknown	gnl\|CDD\|184948
NC_003143.1\|WP_002209495.1\|4419713_4420178_-\|DUF943-family-protein	unknown	unknown	gnl\|CDD\|368741
NC_003143.1\|WP_002209481.1\|4400742_4401546_-\|energy-transducer-TonB	unknown	unknown	gnl\|CDD\|223880
NC_003143.1\|WP_079993164.1\|4420161_4420338_-\|DUF3289-family-protein	unknown	unknown	gnl\|CDD\|132079
NC_003143.1\|WP_002209496.1\|4421259_4422681_+\|glycerol-3-phosphate-dehydrogenase	unknown	unknown	gnl\|CDD\|237027
NC_003143.1\|WP_002209499.1\|4428397_4430386_-\|glycogen-debranching-protein-GlgX	unknown	unknown	gnl\|CDD\|235152
NC_003143.1\|WP_002209502.1\|4433076_4434774_+\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|225814

Protein	Function_ID	Function_description	E-value
NC_003143.1\|WP_002209487.1\|4408918_4410292_-\|argininosuccinate-lyase	gnl\|CDD\|179883	PRK04833, PRK04833, argininosuccinate lyase; Provisional.	0
NC_003143.1\|WP_002209500.1\|4430387_4432571_-\|1,4-alpha-glucan-branching-protein-GlgB	gnl\|CDD\|235445	PRK05402, PRK05402, 1,4-alpha-glucan branching protein GlgB.	0
NC_003143.1\|WP_002215335.1\|4410458_4411235_-\|acetylglutamate-kinase	gnl\|CDD\|239782	cd04249, AAK_NAGK-NC, AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of ornithine biosynthesis. There are two variants of this pathway. In one, typified by the pathway in Escherichia coli, glutamate is acetylated by acetyl-CoA and acetylornithine is deacylated hydrolytically. In this pathway, feedback inhibition by arginine occurs at the initial acetylation of glutamate and not at the phosphorylation of NAG by NAGK. Homodimeric NAGK-NC are members of the Amino Acid Kinase Superfamily (AAK).	2.52737e-136
NC_003143.1\|WP_002223919.1\|4412655_4413819_+\|acetylornithine-deacetylase	gnl\|CDD\|235346	PRK05111, PRK05111, acetylornithine deacetylase; Provisional.	0
NC_003143.1\|WP_100067904.1\|4417570_4418925_+\|IS3-like-element-IS1661-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	9.01643e-48
NC_003143.1\|WP_002209491.1\|4414192_4416829_+\|phosphoenolpyruvate-carboxylase	gnl\|CDD\|234570	PRK00009, PRK00009, phosphoenolpyruvate carboxylase; Reviewed.	0
NC_003143.1\|WP_002209483.1\|4403014_4404823_-\|type-I-secretion-system-permease/ATPase	gnl\|CDD\|226969	COG4618, ArpD, ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only].	0
NC_003143.1\|WP_002209485.1\|4405827_4408320_-\|TonB-dependent-hemoglobin/transferrin/lactoferrin-family-receptor	gnl\|CDD\|273807	TIGR01785, Heme/hemopexin_utilization_protein_C, TonB-dependent heme/hemoglobin receptor family protein. This model represents the TonB-dependent outer membrane heme/hemoglobin receptor/transporter found in bacteria which live in contact with animals (which contain hemoglobin or other heme-bearing globins) or legumes (which contain leghemoglobin). Some species having hits to this model such as Nostoc, Caulobacter and Chlorobium do not have an obvious source of hemoglobin-like proteins in their biological niche and so the possibility exists that they act on some other substance. [Transport and binding proteins, Cations and iron carrying compounds, Transport and binding proteins, Porins].	8.20794e-132
NC_003143.1\|WP_002209489.1\|4411400_4412405_-\|N-acetyl-gamma-glutamyl-phosphate-reductase	gnl\|CDD\|234761	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated.	0
NC_003143.1\|WP_002209482.1\|4401610_4402939_-\|HlyD-family-type-I-secretion-periplasmic-adaptor-subunit	gnl\|CDD\|130902	TIGR01843, Hemolysin_secretion_protein_D_plasmid, type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins. [Protein fate, Protein and peptide secretion and trafficking].	3.16318e-105
NC_003143.1\|WP_002209498.1\|4425459_4426890_-\|glycogen-synthase-GlgA	gnl\|CDD\|234809	PRK00654, glgA, glycogen synthase GlgA.	0
NC_003143.1\|WP_002209484.1\|4404988_4405606_-\|heme-acquisition-protein-HasA	gnl\|CDD\|368907	pfam06438, HasA, Heme-binding protein A (HasA). Free iron is limited in vertebrate hosts, thus an alternative to siderophores has been developed by pathogenic bacteria to access host iron bound in protein complexes. HasA is a secreted hemophore that has the ability to obtain iron from hemoglobin. Once bound to HasA, the heme is shuttled to the receptor HasR, which releases the heme into the bacterium.	9.51098e-102
NC_003143.1\|WP_002209497.1\|4422843_4425291_-\|glycogen-phosphorylase	gnl\|CDD\|184948	PRK14986, PRK14986, glycogen phosphorylase; Provisional.	0
NC_003143.1\|WP_002209495.1\|4419713_4420178_-\|DUF943-family-protein	gnl\|CDD\|368741	pfam06092, DUF943, Enterobacterial putative membrane protein (DUF943). This family consists of several hypothetical putative membrane proteins from Escherichia coli, Yersinia pestis and Salmonella typhi.	1.80736e-84
NC_003143.1\|WP_002209481.1\|4400742_4401546_-\|energy-transducer-TonB	gnl\|CDD\|223880	COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane].	1.51188e-39
NC_003143.1\|WP_079993164.1\|4420161_4420338_-\|DUF3289-family-protein	gnl\|CDD\|132079	TIGR03034, TIGR03034, conserved hypothetical protein. Members of this protein family have been found in several species of gammaproteobacteria, including Yersinia pestis and Y. pseudotuberculosis, Xylella fastidiosa, and Escherichia coli UTI89. As many as five members can be found in a single genome. The function is unknown. [Hypothetical proteins, Conserved].	5.70966e-16
NC_003143.1\|WP_002209496.1\|4421259_4422681_+\|glycerol-3-phosphate-dehydrogenase	gnl\|CDD\|237027	PRK12266, glpD, glycerol-3-phosphate dehydrogenase; Reviewed.	0
NC_003143.1\|WP_002209499.1\|4428397_4430386_-\|glycogen-debranching-protein-GlgX	gnl\|CDD\|235152	PRK03705, PRK03705, glycogen debranching protein GlgX.	0
NC_003143.1\|WP_002209502.1\|4433076_4434774_+\|sensor-histidine-kinase	gnl\|CDD\|225814	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms].	0

>NC_003143.1|WP_002209491.1|4414192_4416829_+|phosphoenolpyruvate-carboxylase
MNEQYSAMRSNVSMLGTLLGDTIKEALGEHILDRVETIRKLSKSSRAGNEASRQELLTTLQNLSNDELLPVARAFSQFLNLTNTAEQYHSISPHGEAASNPEALAQLFTRLKDKKLSDQDMRSAVDDLSIELVLTAHPTEITRRTLIHKLVEVNTCLSQLDHNDLADYERNKIMRRLRQLVAQSWHTDEIRKLRPSPVDEAKWGFAVVENSLWEGVPAFLREFNEQLENSLDYRLPVEAVPIRFTSWMGGDRDGNPNVTAEITRHVLLLSRWKATDLFLRDIQVLVSELSMSECTPELRELAGGEEVLEPYRQLMKNVRTQLTNTQAYLEARLKGERVLPPHDLLVSNDQLWEPLYACYQSLKACGMEIIANGQLLDTLRRVRCFGVPLVRIDVRQESTRHTDAIAELTRYLGLGDYESWSESDKQAFLVRELNSKRPLVPLKWEPSAETQEVLETCRVIAEAPQGSIAAYVISMAKVPSDVLAVHLLLKEAGCPFTLPVAPLFETLDDLNNADDVMTQLLGIDWYRGLIQGKQMVMIGYSDSAKDAGVMAASWAQYRAQDALIKTCEKAGITLTLFHGRGGSIGRGGAPAHAALLSQPPGSLKGGLRVTEQGEMIRFKFGLPEVTISSLALYAGAILEANLLPPPEPKKEWIEVMDLLSDASCDMYRSYVRENPEFVRYFRAATPELELGKLPLGSRPAKRRPDGGVESLRAIPWIFAWTQNRLMLPAWLGAGAGLQRAIDAGKQDVLATMCRDWPFFSTRIGMLEMVFAKADLWLAEYYDQRLVDKSLWPLGQQLRDQLAADIKVVLAIANDDHLMADLPWIAESIALRNVYTDPLNVLQAELLHRSRQQEHPDACVEQALMVTIAGVAAGMRNTG
>NC_003143.1|WP_002223919.1|4412655_4413819_+|acetylornithine-deacetylase
MKLPPFIELYRALIATPSISAADSALDQSNEALINLLAGWFADLGFRVEIQPVPDTRHKFNLLASIGENENGEGHGGLLLAGHTDTVPYDEGRWTRDPFTLTEHDHKLYGLGTADMKGFFAFILDAVRDIDASKLTKPLYILATADEETTMAGARYFAANTQLRPDFAIIGEPTSLQPVRAHKGHISNAIRITGQSGHSSDPARGVNAIDLMHESITQLMALRTTLQERYHNPAFTIPYPTMNFGHINGGDAANRICACCELHMDIRPLPGLTLSDLNELMTEALEPVSQRWPGRLSIDELHPPIPGYECPTDHHMVGVIEKLLGERTAVVNYCTEAPFIQQVCPTLVLGPGSINQAHQPDEFIDMAFIEPTRELIGQLVDHFCQQK
>NC_003143.1|WP_002209489.1|4411400_4412405_-|N-acetyl-gamma-glutamyl-phosphate-reductase
MLNTLIVGASGYAGAELTAYLNRHPHMNITGLAVSAQSADAGKLLSDLHPQLKGILDLPLQPLVDVAQAAKGIDVVFLATAHEVSHDLAPQFLAAGCVVFDLSGAFRVRDAAFYSQYYGFEHQHPDWLDKAVYGLAEWQSEDIKQAQLIAVPGCYPTASQLALKPLVDGQLLNDAQWPVINAVSGVSGAGRKASMGNSFCEVSLQPYGLFTHRHQPEIVTHLGTPVIFTPHLGNFARGILATITCRLKAGVTAQNIADAYHHAYQNKPLVRLYQQGVPALKAVVGLPFCDIGFSVQGEHLIIVATEDNLLKGAAAQAVQCMNIRFGFPETQSLL
>NC_003143.1|WP_002215335.1|4410458_4411235_-|acetylglutamate-kinase
MMNPLVIKLGGVLLDSEEALERLFTALVTYREKHERPLVIMHGGGCLVDELMKRLALPVVKKNGLRVTPADQIDIITGALAGTANKTLLAWAVKHQINAVGLCLADGNTVTVTLLDAELGHVGKAQPGSAALVQTLLAAGYMPIISSIGITVEGQLMNVNADQAATALAATLGADLILLSDVSGILDGKGQRIAEMTAQKAEQLIAQGIITDGMVVKVNAALDAARSLGRPVDIASWRHSEQLPALFNGVPIGTRISV
>NC_003143.1|WP_002209487.1|4408918_4410292_-|argininosuccinate-lyase
MALWGGRFSQAADQRFKQFNDSLRFDYRLAEQDIIGSVAWSKALVTVGVLNADEQQQLEQALSVLLEEVQANPHAILASDAEDIHSWVETKLIDKVGDLGKKLHTGRSRNDQVATDLKLWCKFQITELQTAVQQLQQALVMTAEANQDAVMPGYTHLQRAQPVTFAHWCLAYVEMLSRDESRLQDTLKRLDVSPLGCGALAGTAYAIDREQLAGWLGFASATRNSLDSVSDRDHVLELLSDASIGMVHLSRFAEDLIFFNSGEAAFVDLSDRVTSGSSLMPQKKNPDALELIRGKCGRVQGALTGMTMTLKGLPLAYNKDMQEDKEGLFDALDTWLDCLHMAALVLDGIQVKRPRCKEAAEQGYANATELADYLVAKGVPFREAHHIVGEAVVEAIRQGKALEALALSDLQQFSSVIGDDVYPILALQSCLDKRVAKGGVSPQQVASAIAEAKARLF
>NC_003143.1|WP_002209485.1|4405827_4408320_-|TonB-dependent-hemoglobin/transferrin/lactoferrin-family-receptor
MDNIIRDKKTIISVNKITTCILFALVTQGYSGQLAANTAETPTNNNDMALDKLNVEGKGNAHDSDWIYDEPRSVSEITREQLDNRPARHAADILEQTPGVYSSVSQQDPGLSINIRGIQDYGRVNMNIDGMRQNFMKSGHGQRNGSMYIDPEILSNVVIERGIFNGIGGAGAIGGIATFNTINASDFLAPEKELGGHIRAMTGDNGTRFIGSGALALGNPNGDILLAVSERNLKDYWPGNKGVLAGLRLYSPTRNVGDDLKNTKTLFTGYKMRSQLAKVGWNFEAGQRLEFSYLQTQIASPNASMLSEVLALSPSGKEITKIGWRNTSFTNVENRNIALDYRLNPEHISWLDATAKIYYVDTNDETDNANSLFKEYFWTQTRLKTRGLQLQNTNTFTPSDAHQIRLKYGLEWFSDKSEGYSTRKLIERTTPPGKRAITSTFAQLNYEYDDWLRLEGGLRYDQFRLKGNTWLHTRSFLQPYTFENPCDRRIHEQSEKPGSRCSSRRPATMRWDVDRCEQQLSPTLAMGVKPGLEWLEFFGSYGKSWRPPAMTEVLATGTAHGYSWVLPNPFVAAERARTWEAGFNIQQSNLFIEDDHFAAKVAYFDTRIANYINLELGKAKPKFGGDSFTDVAYVNNLLKTRFRGLEYQLSYDAGTFYTNINYTRMIGVNNVCSPYAWLGGLQSVKYKYVGKVEQIYAVENEVANNYVTCMNANVLFGSSAYLPGDRGSLTLGSRIFDRRLDFGTVIRYNKGYQDRSAQDENGNPLTAYVADWPKYIVYDLYASYKVTNNLILRSSIENITNRAYLVNYGDTLSFAPSRGRTIQGGFEYKF
>NC_003143.1|WP_002209484.1|4404988_4405606_-|heme-acquisition-protein-HasA
MSTTIQYNSNYADYSISSYLREWANNFGDIDQAPAETKDRGSFSGSSTLFSGTQYAIGSSHSNPEGMIAEGDLKYSFMPQHTFHGQIDTLQFGKDLATNAGGPSAGKHLEKIDITFNELDLSGEFDSGKSMTENHQGDMHKSVRGLMKGNPDPMLEVMKAKGINVDTAFKDLSIASQYPDSGYMSDAPMVDTVGVVDCHDMLLAA
>NC_003143.1|WP_002209483.1|4403014_4404823_-|type-I-secretion-system-permease/ATPase
MESCKTPGASSVPPTILSVLAGNKKILWGIGLFTAVINLLMLAPAIYMLQVYDRVLASANTMTLLMLTVLVLGVFVFIGLLEWVRSAVVIRLGTQIDMQLNQPVFNAAFAANLKGHNTPAAQALNDLTVLRQFATGNALFAFFDAPWFPLYLLVIFLLHPWLGMLAAAGAGILVVLAWLNQWICKKPLHDASIITSHATQQANANLRNADVIEAMGMLKALRERWLMQHANFLYQQNLASDKSSRVTAVAKSSRQALQSMMLGLGALLVIYNEITAGVMIAGSILIGRVLGPIDQLIAVWKQWSHARLAYQRLSQLLAQHPSSPTGMVLPAPQGKLNVTQLMACKPGTHIPVLHSINFELQPGDVLGILGPSGSGKSTLAKLLVASQPTFSGTVRLDSADLSRWDKTQLGEFIGYLPQNIQLFRGTVAENIARFGAIDTAKVVAAAQLADVHDLILHLPQGYDTPLGDDGEGLSGGQRQRIALARAMYGIPRLIVLDEPNASLDKEGEQALLASIIQLKQQGCTIVMITHKPELLSGSDYLLFLKNGQMDLFDRTQAVLQNIQGKDKPAVQPEAKILNSRSGWSNGVSYGIGPARTTSSPKP
>NC_003143.1|WP_002209482.1|4401610_4402939_-|HlyD-family-type-I-secretion-periplasmic-adaptor-subunit
MLPESVCYSVANANRQPPLQINSGRYLNIGGGLVVIGFIGFLLWAGLAPLDKGVAVTGLLVVAENRKVIQPLQGGRIQQLHVTEGDEIVSGQLLVTLDDTAIRNQRDNLQHQYLSALAQEARLTAEQNDLDVITFPQALLEHATQPAVERNIILQQQLLHHRRQAHLSEIARLSTQLTRHQARLDGLQAMRSNHQRQSNLFQQQLDSVQLLAKDGHIAKNKLLEMESQSTSLQARVEQSTSDIAEAHKLIDETEQHVLQRREQYQSENSEQLAKAQQNTQELVQRLNIAEYELSHTRIFAPVSGSVIALAQHTVGGVVSSGQALMEIVPSGQPLFVEAQLPVELIDKVAVGLPVDLNFSAFNQSNTPRLQGSVWRIGADRIQPPPTSPPYYPLTVAIDLDPTELAIRPGMAVDVFIRTGERSLLSYLFKPFTDRLHLALAEE
>NC_003143.1|WP_002209481.1|4400742_4401546_-|energy-transducer-TonB
MNRLQQSSDKLIFWLVGALLACGIHIYALWWLSTASIPAIPTSYPAAIMMELSAEPEFMQNLPQNSVVGITQNIIEPAVEQRVNQPDDIVDLPTLPEQPEGQREITRKEPIKVKRPAENRATSRKPVNKETQESDSKQSSPAAAASAMLSGTSQQVAAAVNSDSSHRQQAQVSWKSRLQGHLMGFKRYPSSARKQQQQGTAMIRFVVDKNGYVSSVQLSHSSGTSALDREALAIIKRAQPLPKPPAELLSQGQITLSLPVDFNLKRK
>NC_003143.1|WP_100067904.1|4417570_4418925_+|IS3-like-element-IS1661-family-transposase
MKHPFSTRLAAVQHYLSGKATLRETARQFSVGKSPLTRWIRAFRRQGEAGLEHHLSRTYTPEFRLCVVRYMMANRCSAADASAHFNIPNETIIQNWMKRYREGGKEALNPSKTGPTMPKDKYEHDSKPFSEMTHAELEKELEYLRAENAYPKKAESPERRKGTQGAAEKTRIVQALTAEHRLSCLLCAAKLARSTYYYHASKPDGVIDDYADAVKAIGALSRRHAQRYGYRRMTVALRKEGFTLNHKTVRKLMNQHGLLSLIRRKKYRSYRADGGRASDNLLARNFTSEISGLKWCTDVTEFRVGAQKLYLSVIQDLFNNEIISWHMSERAALILTCKTLEKALKVKGRKEGLMLHSDQGWHYRTPMWRSMLVEAGIRQSMSRKGNCLDNAVMENFFSHLKAEMYHRKKYDSATVLKRDIVEYIHYYNTERISLKTGGMSPAEYRTQVEKQ
>NC_003143.1|WP_002209494.1|4419279_4419549_-|hypothetical-protein
MLTDRDIEKTPKITRDYYFEYQPGDGYNPSSTIIFNHTLDASPLKNYLNSLGYERQSQILVIVKCGHYQAKRHNPLSISGWIRRTIKFG
>NC_003143.1|WP_002209495.1|4419713_4420178_-|DUF943-family-protein
MKVKSKKNLWALLLTGSALLGYVFWLLLHPVEIVSVHQRNDYSDVLVRNFPLTDKSKINWWLENRDMLKDKYSIPKPASDGFYTVIFWDFGDGYKEEGKYDRRCFDDMKTSKNCIDKNKVFSVENDRDKDILFSVYDGMYRLEKNGKIVKMKRE
>NC_003143.1|WP_079993164.1|4420161_4420338_-|DUF3289-family-protein
MKRSYLDNDNIKNSTFNGFNLFRIGFVLQRFNQFSFKPFMTNMEATVEIAGSRNESKK
>NC_003143.1|WP_002209496.1|4421259_4422681_+|glycerol-3-phosphate-dehydrogenase
METKDLACATSSASSKLIHGGLRYLEHYEFRLVSEALAEREVLLKLAPHIAFPMRFRLPHQPHLRPAWMIRTGLFLYDHLGKRTSLPASKGLRFGPESVLKPELVRGFEYSDCWVDDARLVVLNVQEVVKHGGEVRTRTKVTRTWREQGLWMVEALDVNTGKTFTWRAKGLVNATGPWVKQFFDDGLKLKSPYGIRLIKGSHIVVPRVHNQPQAYILQNEDHRIVFVIPWLDDYSIIGTTDVEYHGDPKEVKIDDQEMTYLLKVYNDHFKKQLGRDDIVWTYSGVRPLCDDESDSPQAVTRDYTLDVADEAGQAPLLSVFGGKLTTYRKLAEHALEKLSAYYPNVGPAWTKTGALPGGDIGGSRDSYTVQLRHRYNWLPEGLARRYTRTYGSHSELILANATRLESLGEHFGHGLYEAELRYLVENEWVVELDDAIWRRTKLGMALSDEEKQRVAQWLADAHTEKQQALPLVS
>NC_003143.1|WP_002209497.1|4422843_4425291_-|glycogen-phosphorylase
MTSPFSYTSPVVSVDALKHSIAYKLMFIIGKDPTIATQHDWLNATLFAVRDRMVERWLRSNRAQLSQDVRQVYYLSMEFLLGRTLSNALLSMGIYDEIEQALDEMGLSLSELLKEENDPGLGNGGLGRLAACFLDSLATLALPGRGYGIRYEYGMFSQKIVNGQQMESPDNWLEYGNAWEFPRHNTRYKVRFGGRIQQEGSKIRWLETEEILACAYDQIIPGFDTDATNTLRLWSAQASNEINLGKFNQGDYFAAVEDKNHSENVSRVLYPDDSTYSGRELRLRQEYFLVSATVQDILNRHWAMHHTFNNLADKIAIHLNDTHPVLSIPEMMRLLIDEHKFTWMDAWDVVQQVFSYTNHTLMSEALETWPVDMIGKILPRHLQIIFDINDHFLKLVEEQYPDDKELLSRVSVIDENNGRRIRMAWLAVIASHKVNGVSALHSELMVQSLFADFARIFPNRFCNKTNGVTPRRWLGLANRPLAAVLDDSIGQTWRTDLSQLSELEKNLDYPSFLLALQKAKLENKKRLAVYIAEKLNIVVNPAALFDVQIKRIHEYKRQLLNVLHVITRYNRIIDAPDNNWVPRVVIFAGKAASAYYNAKQIIHLINDVAKVINNDPRINNLLKVVFIPNYSVSLAQLIIPAADLSEQISLAGTEASGTSNMKFALNGALTIGTLDGANVEIREHVGEENIFIFGNTTEQVEALRKSGYNPRKYYDEDPELHQVLTQIATGTFSPEEPHRYTNLFDSLVNLGDHYQLLADYRSYVDTQEQVDALYRNRDEWSRKTLLNIANMGYFSSDRTIKEYADEIWHIKPIRL
>NC_003143.1|WP_002209498.1|4425459_4426890_-|glycogen-synthase-GlgA
MRVLHVCSELFPLLKTGGLADVIGALPAAQLAEGADVRIILPAFPDLRRGIPETVLVREIDTFAGRVALRYGHYRGIGIYLIDAPALYDRAGSPYHDASLYAYSDNYLRFALLGWMACELACGLDGYWRPEVVHAHDWHAGLTCAYLAARGRPARSVFTVHNLAYQGLFSADHLSELHLPAEFFQIYGLEFYGQISYLKAGLFFADHVTTVSPTYAKEITQPAFGYGMEGLLQALARQGRLTGILNGVDSDIWDPQSDTLLPTRYDAENLQAKAINKTHLQTAMGLQLAENKPIFAVVSRLTVQKGLDLVLEALPELLALGGQLVVLGSGDATLQEAFLAAAAEHSGQVGVQIGYHEAFSHRIIAGSDVILVPSRFEPCGLTQLYGLKYGTLPLVRHTGGLADTVVDCALENLADGSASGFVFNECEAQALVKAIRRAFVLWSRPKHWRHVQRHAMRLDFGWQLAAVDYLSLYRRL
>NC_003143.1|WP_002209499.1|4428397_4430386_-|glycogen-debranching-protein-GlgX
MAVLTHGSPTPSGAHFDGKGINFTLFSAHAEQVTLCLFDEQGQERQIAMPARTGDIWHGYLPGGKPGQRYGYRVSGPFEPSRGHRFNPHKLLIDPRTRALEGKVGDDPRFTGGVSQPDVRDSAAALPKCLVIHEEYDWQGDKPPAIPWGNTVIYEAHVRGLTQLHPDIPPELRGTYAALAHPALIEHLKTLGITTLELLPVQFHIDEPRLQKMGLSNYWGYNVLAPFAVDPDYASGREGISPLRELRDAVKALHNAGIEVILDVVFNHSAELDVFGPTLCQRGIDNASYYWLTPDGEYDNITGCGNALRLSHPYVTQWVIDCLNYWRDSCHVDGFRFDLGTVLGRTPAFDQHAPLFAALAADERLSACKLIAEPWDIGLGGYQLGNFPTGFSEWNDQYRDAMRGFWLRGEVPRGTFAQHFAASSRLFEQRGRLPSASINQITAHDGFTLLDLLCFNQKHNQMNGEENRDGSDNNHSNNFGCEGLVADAAIWQRRKACQRALLTTLLLSQGTPMLLAGDEQGHSQQGNNNAYCQNNILTWLDWGSADRALMTFTADLIRLRQQIPALTQDQWWQSGDSNVQWLDSQGQALSDAAWEQGCQQQLQILLSQRWLVLINATDHECEMHLPEGEWEGIPPFGVSDHAERLTTWRGSAHTICVLIKRD
>NC_003143.1|WP_002209500.1|4430387_4432571_-|1,4-alpha-glucan-branching-protein-GlgB
MSVLPDRQVINQLISGHYGDPFSILGMHETSQGLQICALLPDAREVWLVETENGRRIAQLTLEDPRGFFIAQLTRRKKSFRYQFAVTWQENPQIIEDPYRFGPLLQDIDSWLLAEGTHLRPYERLGAHLMSLDGVSGVSFAVWAPNAQRVSVVGDFNFWDGRRHPMRLRRENGIWELFLPGIEAGQLYKFEIIDCHGQVRLKADPYAFEAQMRPETASLISPLPDVVKSSAARQKANDLCSPVSIYEVHLGSWRRHTDNNFWLSYRELADQLVEYVKYMGFTHVELLPINEHPFDGSWGYQPLGLYAPTRRYGTPEDFKAFVAKFHQAGINVILDWVPGHFPSDEHGLSTFDGTALYEYADPREGYHQDWNTLIYNYGRNEVRNYLAGNAFYWMERFGIDALRIDAVASMIYRDYSRAEGQWVPNYYGGRENLEAIAFLRYTNKTIGVERPGSVTMAEESTDFPGVTLPPDIGGLGFNYKWNMGWMHDTLNYMQCDPVHRKYHHNLMTFGMLYAYTENFILPLSHDEVVHGKRSILDRMPGDAWQKFANLRAYYAFMWAHPGKKLLFMGCEFAQGREWNFETSLDWHLLDDENGWHSGVQRLVRDLNHCYRQYAPLYEWDYQPAGFEWLVVDDHENSVFAFLRRDAEGHELIAISNFTPVPRYHYRVGIPQGGHYREVLNSDSAFYCGSNLGNQGGIDSHHVRSHNHEHSLLLTLPPLATIYLLREN
>NC_003143.1|WP_002209502.1|4433076_4434774_+|sensor-histidine-kinase
MGISQTELIFSLLQQMCVYLVIAYLLSKTPLFIPLMQVTIRLPHKLVCYLTFSMFCIMGTYFGLNIDDSIANTRAIGAVLGGMLGGPSVGFLVGLTGGLHRYSMGGMTATACMLSTIAEGLLGGLLHLYLTRKNRLDLLFQPLVVAGITLVAEVLQMMIILAVARPFNEAVELVENIALPMMITNTIGAAMFMRILLDRRAIFEKYTTAFSAKALQIAARAEGLLRHGFDQQNSMRVARILYEELGVGAVAITDREKLLAFIGSGADHHQVGSAITSSHTHRAIELNQVVYADGNAVPYTCSISPTCKLGSTLVIPLRGEEHRVIGSIKLYEPKSKLFSSINRTLGEGIAHLLSAQILAGEFEQQKQLLAQSEIKLLHAQVNPHFLFNALNTLSVVIRRNPDHARNLVLSLSTFFRKNLKRSHDVVTLSDEIEHVNAYLEIEKARFADRLTVTVSLPNELMEAHLPAFSLQPVVENAIKHGISQMFSNGRVTLRGKLDDNTLVLEVEDNAGLYQPQPDGDGLGMSLVDRRIKARYGKEYGITVVSNAEVFTRIIIKLPFITVSEQ

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Identity
NC_003143_3	3.7\|2769682\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769682-2769713	32	NC_003143.1	2374731-2374762	1.0
NC_003143_3	3.8\|2769742\|33\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769742-2769774	33	NC_003143.1	2380611-2380643	1.0
NC_003143_4	4.1\|2895311\|33\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	2895311-2895343	33	NC_003143.1	2382983-2383015	1.0
NC_003143_4	4.5\|2895554\|32\|NC_003143\|CRISPRCasFinder,CRT	2895554-2895585	32	NC_003143.1	2380297-2380328	1.0

1. spacer 3.7|2769682|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to position: 2374731-2374762, mismatch: 0, identity: 1.0

aaaaagaatttgggattaaagttacccatcag	CRISPR spacer
aaaaagaatttgggattaaagttacccatcag	Protospacer
********************************

2. spacer 3.8|2769742|33|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to position: 2380611-2380643, mismatch: 0, identity: 1.0

tcaatgcctgaatctctggcgtgatagctgcgg	CRISPR spacer
tcaatgcctgaatctctggcgtgatagctgcgg	Protospacer
*********************************

3. spacer 4.1|2895311|33|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to position: 2382983-2383015, mismatch: 0, identity: 1.0

ccggcggtgatggcaattctacgtgggttcgtt	CRISPR spacer
ccggcggtgatggcaattctacgtgggttcgtt	Protospacer
*********************************

4. spacer 4.5|2895554|32|NC_003143|CRISPRCasFinder,CRT matches to position: 2380297-2380328, mismatch: 0, identity: 1.0

agactgatgcaagatggcggtatgcgtacaga	CRISPR spacer
agactgatgcaagatggcggtatgcgtacaga	Protospacer
********************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_003143_4	4.5\|2895554\|32\|NC_003143\|CRISPRCasFinder,CRT	2895554-2895585	32	MT374852	Yersinia phage vB_YpM_3, complete genome	12-43	0	1.0
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK820641	Gordonia phage EnalisNailo, complete genome	34088-34119	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK878898	Gordonia phage Zameen, complete genome	34513-34544	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK919483	Gordonia phage Suscepit, complete genome	34514-34545	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK284520	Gordonia phage Lilas, complete genome	35799-35830	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK016492	Gordonia phage Bialota, complete genome	35265-35296	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK820642	Gordonia phage Polly, complete genome	33956-33987	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NC_041883	Gordonia phage Attis, complete genome	31646-31677	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK814755	Gordonia phage Antonio, complete genome	34513-34544	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK875796	Gordonia phage Tayonia, complete genome	34513-34544	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK801734	Gordonia phage LordFarquaad, complete genome	31627-31658	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	MK433274	Gordonia phage Bradissa, complete genome	34554-34585	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	KU963257	Gordonia phage Kita, complete genome	34522-34553	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NC_031251	Gordonia phage SoilAssassin, complete genome	31645-31676	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NC_031097	Gordonia phage Zirinka, complete genome	35253-35284	6	0.812
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NZ_CP005086	Sphingobium sp. TKS plasmid pTK2, complete sequence	138555-138586	6	0.812
NC_003143_2	2.2\|1773743\|32\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	1773743-1773774	32	MH616963	CrAssphage sp. isolate ctbg_1, complete genome	86942-86973	7	0.781
NC_003143_3	3.1\|2769322\|32\|NC_003143\|CRISPRCasFinder,CRT	2769322-2769353	32	CP049262	Cronobacter sakazakii strain CS-09 plasmid pCsaCS09b, complete sequence	69636-69667	7	0.781
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	JF974294	Aeromonas phage pIS4-A genomic sequence	21965-21996	7	0.781
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NC_021534	Vibrio phage pYD38-A genomic sequence	3299-3330	7	0.781
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NZ_AP014579	Burkholderia sp. RPE67 plasmid p1, complete sequence	440819-440850	7	0.781
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NC_016626	Burkholderia sp. YI23 plasmid byi_1p, complete sequence	282870-282901	7	0.781
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	KJ433975	Mycobacterium phage 40BC, complete genome	23231-23262	7	0.781
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	KJ433973	Mycobacterium phage 39HC, complete genome	23231-23262	7	0.781
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NC_024145	Mycobacterium phage Hosp, complete genome	21427-21458	7	0.781
NC_003143_2	2.2\|1773743\|32\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	1773743-1773774	32	NZ_CP010358	Acinetobacter johnsonii XBB1 plasmid pXBB1-8, complete sequence	46720-46751	8	0.75
NC_003143_2	2.2\|1773743\|32\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	1773743-1773774	32	NC_019694	Oscillatoria acuminata PCC 6304 plasmid pOSCIL6304.02, complete sequence	20911-20942	8	0.75
NC_003143_3	3.6\|2769622\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769622-2769653	32	NZ_CP024873	Leptospira mayottensis 200901116 plasmid p1_L200901116, complete sequence	14979-15010	8	0.75
NC_003143_3	3.7\|2769682\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769682-2769713	32	NZ_CP047125	Lactobacillus hilgardii strain FLUB plasmid unnamed4	1912-1943	8	0.75
NC_003143_2	2.2\|1773743\|32\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	1773743-1773774	32	MT774386	CrAssphage cr110_1, complete genome	42858-42889	9	0.719
NC_003143_2	2.2\|1773743\|32\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	1773743-1773774	32	NZ_CP028934	Campylobacter jejuni strain FORC_083 plasmid pFORC_083_2, complete sequence	25849-25880	9	0.719
NC_003143_3	3.2\|2769382\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769382-2769413	32	NZ_CP031943	Nostoc sphaeroides strain Kutzing En plasmid p2, complete sequence	4006-4037	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	MF679145	Escherichia coli plasmid pBJ114-96, complete sequence	37586-37617	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_KP453775	Klebsiella pneumoniae strain ST11 plasmid pKP12226, complete sequence	60831-60862	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP021340	Escherichia coli strain 95NR1 plasmid p95NR1A, complete sequence	67671-67702	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP021336	Escherichia coli strain 95JB1 plasmid p95JB1A, complete sequence	67672-67703	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP040920	Escherichia coli strain FC853_EC plasmid p853EC1, complete sequence	33435-33466	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP024832	Escherichia coli strain CREC-532 plasmid pCREC-532_2, complete sequence	33830-33861	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP024817	Escherichia coli strain CREC-629 plasmid pCREC-629_2, complete sequence	62769-62800	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP029117	Escherichia coli strain AR435 plasmid unnamed4	15616-15647	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP029117	Escherichia coli strain AR435 plasmid unnamed4	112580-112611	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP023961	Escherichia coli strain FDAARGOS_448 plasmid unnamed2, complete sequence	16858-16889	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	AP023222	Escherichia coli M505 plasmid pM505-b DNA, complete genome	93734-93765	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	AP023233	Escherichia coli YJ4 plasmid pYJ4-b DNA, complete genome	47570-47601	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP019075	Escherichia coli strain CRE1493 plasmid p1493-4, complete sequence	16520-16551	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP015837	Escherichia coli strain MS6198 plasmid pMS6198C, complete sequence	3287-3318	9	0.719
NC_003143_3	3.3\|2769442\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769442-2769473	32	NZ_CP011063	Escherichia coli str. Sanji plasmid pSJ_98, complete sequence	37637-37668	9	0.719
NC_003143_4	4.4\|2895493\|33\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	2895493-2895525	33	NZ_CP040366	Bacillus flexus isolate 1-2-1 plasmid punnamed3, complete sequence	923-955	9	0.727
NC_003143_3	3.4\|2769502\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769502-2769533	32	NZ_JX627581	Methylobacterium oryzae CBMB20 plasmid pMOC2, complete sequence	30496-30527	10	0.688
NC_003143_3	3.6\|2769622\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769622-2769653	32	NC_007974	Cupriavidus metallidurans CH34 megaplasmid, complete sequence	815356-815387	11	0.656
NC_003143_3	3.6\|2769622\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769622-2769653	32	NC_007974	Cupriavidus metallidurans CH34 megaplasmid, complete sequence	820287-820318	11	0.656
NC_003143_3	3.6\|2769622\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769622-2769653	32	NZ_CP046333	Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3	2180994-2181025	11	0.656
NC_003143_3	3.6\|2769622\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769622-2769653	32	NZ_CP046333	Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3	2185925-2185956	11	0.656

1. spacer 4.5|2895554|32|NC_003143|CRISPRCasFinder,CRT matches to MT374852 (Yersinia phage vB_YpM_3, complete genome) position: , mismatch: 0, identity: 1.0

agactgatgcaagatggcggtatgcgtacaga	CRISPR spacer
agactgatgcaagatggcggtatgcgtacaga	Protospacer
********************************

2. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK820641 (Gordonia phage EnalisNailo, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

3. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK878898 (Gordonia phage Zameen, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

4. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK919483 (Gordonia phage Suscepit, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

5. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK284520 (Gordonia phage Lilas, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

6. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK016492 (Gordonia phage Bialota, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

7. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK820642 (Gordonia phage Polly, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

8. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_041883 (Gordonia phage Attis, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

9. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK814755 (Gordonia phage Antonio, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

10. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK875796 (Gordonia phage Tayonia, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

11. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK801734 (Gordonia phage LordFarquaad, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

12. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MK433274 (Gordonia phage Bradissa, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

13. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to KU963257 (Gordonia phage Kita, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

14. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_031251 (Gordonia phage SoilAssassin, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

15. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_031097 (Gordonia phage Zirinka, complete genome) position: , mismatch: 6, identity: 0.812

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
gtcgtc-cgccgtgatcctgagcgcgctcgcga	Protospacer
 ***.* . ****** **********.******

16. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP005086 (Sphingobium sp. TKS plasmid pTK2, complete sequence) position: , mismatch: 6, identity: 0.812

tcgccattccgtgaacctgagcgcgttcgcga--	CRISPR spacer
tcgcctttccctgaacctga--gcgatcgtgacc	Protospacer
***** **** *********  *** ***.**

17. spacer 2.2|1773743|32|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to MH616963 (CrAssphage sp. isolate ctbg_1, complete genome) position: , mismatch: 7, identity: 0.781

atttattaaagatgctgacaaaaagaacttaa	CRISPR spacer
aattataaaagatgctgataaaaagattatta	Protospacer
* **** ***********.******* . * *

18. spacer 3.1|2769322|32|NC_003143|CRISPRCasFinder,CRT matches to CP049262 (Cronobacter sakazakii strain CS-09 plasmid pCsaCS09b, complete sequence) position: , mismatch: 7, identity: 0.781

tcaggggactggcgaacaatgtctttcatgat	CRISPR spacer
acgtcgcgctggcgaacaatctctttcatgat	Protospacer
 *.  * .************ ***********

19. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to JF974294 (Aeromonas phage pIS4-A genomic sequence) position: , mismatch: 7, identity: 0.781

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attacctgaatggcatttgctttatgcctgat	Protospacer
****.************* ****.   * ***

20. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_021534 (Vibrio phage pYD38-A genomic sequence) position: , mismatch: 7, identity: 0.781

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attacctgaatggcatttgctttatgcctgat	Protospacer
****.************* ****.   * ***

21. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_AP014579 (Burkholderia sp. RPE67 plasmid p1, complete sequence) position: , mismatch: 7, identity: 0.781

----tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
cacctcgc----tcgggaacctgggcgcgttcgcga	Protospacer
    ****    .** *******.************

22. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_016626 (Burkholderia sp. YI23 plasmid byi_1p, complete sequence) position: , mismatch: 7, identity: 0.781

----tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
cacctcgc----tcgggaacctgggcgcgttcgcga	Protospacer
    ****    .** *******.************

23. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to KJ433975 (Mycobacterium phage 40BC, complete genome) position: , mismatch: 7, identity: 0.781

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
cccgccg-cccgtgtacccgagcgcgttcgcgc	Protospacer
 .****. .***** ***.*************

24. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to KJ433973 (Mycobacterium phage 39HC, complete genome) position: , mismatch: 7, identity: 0.781

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
cccgccg-cccgtgtacccgagcgcgttcgcgc	Protospacer
 .****. .***** ***.*************

25. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_024145 (Mycobacterium phage Hosp, complete genome) position: , mismatch: 7, identity: 0.781

-tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
cccgccg-cccgtgtacccgagcgcgttcgcgc	Protospacer
 .****. .***** ***.*************

26. spacer 2.2|1773743|32|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP010358 (Acinetobacter johnsonii XBB1 plasmid pXBB1-8, complete sequence) position: , mismatch: 8, identity: 0.75

atttattaaagatgctgacaaaaagaacttaa	CRISPR spacer
atttattaatgatgctgacgaaaatatggcac	Protospacer
********* *********.**** *   .*

27. spacer 2.2|1773743|32|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to NC_019694 (Oscillatoria acuminata PCC 6304 plasmid pOSCIL6304.02, complete sequence) position: , mismatch: 8, identity: 0.75

atttattaaagatgctgacaaaaagaacttaa	CRISPR spacer
atttattaaagaagctgccaaaagagcatcaa	Protospacer
************ **** *****...  *.**

28. spacer 3.6|2769622|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP024873 (Leptospira mayottensis 200901116 plasmid p1_L200901116, complete sequence) position: , mismatch: 8, identity: 0.75

tcggtcaaacaaatttaggcgacgatttaaca	CRISPR spacer
ttactcaaacaagttgaggcgacgattctaaa	Protospacer
*.. ********.** ***********. * *

29. spacer 3.7|2769682|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP047125 (Lactobacillus hilgardii strain FLUB plasmid unnamed4) position: , mismatch: 8, identity: 0.75

aaaaagaatttgggattaaagttacccatcag	CRISPR spacer
taaaagcttttgggattaaagttattcaaaat	Protospacer
 *****  ****************..**  *

30. spacer 2.2|1773743|32|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to MT774386 (CrAssphage cr110_1, complete genome) position: , mismatch: 9, identity: 0.719

atttattaaagatgctgacaaaaagaacttaa	CRISPR spacer
tgctattgaagatgctgataaaaagaaacttg	Protospacer
  .****.**********.******** .* .

31. spacer 2.2|1773743|32|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP028934 (Campylobacter jejuni strain FORC_083 plasmid pFORC_083_2, complete sequence) position: , mismatch: 9, identity: 0.719

atttattaaagatgctgacaaaaagaacttaa	CRISPR spacer
gcacattacagacgctgacaaaaagaaagtta	Protospacer
.. .**** ***.**************  * *

32. spacer 3.2|2769382|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP031943 (Nostoc sphaeroides strain Kutzing En plasmid p2, complete sequence) position: , mismatch: 9, identity: 0.719

gaaaaggtaagatgggcaagcttctagtagtt	CRISPR spacer
ttatgagaaagatgggcaagcttttagtggta	Protospacer
  * ..* ***************.****.**

33. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to MF679145 (Escherichia coli plasmid pBJ114-96, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

34. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KP453775 (Klebsiella pneumoniae strain ST11 plasmid pKP12226, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

35. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP021340 (Escherichia coli strain 95NR1 plasmid p95NR1A, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

36. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP021336 (Escherichia coli strain 95JB1 plasmid p95JB1A, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

37. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP040920 (Escherichia coli strain FC853_EC plasmid p853EC1, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

38. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP024832 (Escherichia coli strain CREC-532 plasmid pCREC-532_2, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

39. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP024817 (Escherichia coli strain CREC-629 plasmid pCREC-629_2, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

40. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP029117 (Escherichia coli strain AR435 plasmid unnamed4) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

41. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP029117 (Escherichia coli strain AR435 plasmid unnamed4) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat-----	CRISPR spacer
attatctgattggcagtttctttaac-----tgttta	Protospacer
********* ***** *******..*     *

42. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP023961 (Escherichia coli strain FDAARGOS_448 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

43. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to AP023222 (Escherichia coli M505 plasmid pM505-b DNA, complete genome) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

44. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to AP023233 (Escherichia coli YJ4 plasmid pYJ4-b DNA, complete genome) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

45. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP019075 (Escherichia coli strain CRE1493 plasmid p1493-4, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

46. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP015837 (Escherichia coli strain MS6198 plasmid pMS6198C, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

47. spacer 3.3|2769442|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP011063 (Escherichia coli str. Sanji plasmid pSJ_98, complete sequence) position: , mismatch: 9, identity: 0.719

attatctgaatggcattttctttggcgcagat	CRISPR spacer
attatctgattggcagtttctttaactgtttt	Protospacer
********* ***** *******..*     *

48. spacer 4.4|2895493|33|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP040366 (Bacillus flexus isolate 1-2-1 plasmid punnamed3, complete sequence) position: , mismatch: 9, identity: 0.727

ccgaaatcatcagatgtaattaagatttttgct	CRISPR spacer
aatggattatcagatgtaattaagtttttttcc	Protospacer
   ..**.**************** ***** *.

49. spacer 3.4|2769502|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_JX627581 (Methylobacterium oryzae CBMB20 plasmid pMOC2, complete sequence) position: , mismatch: 10, identity: 0.688

tcgccattccgtgaacctgagcgcgttcgcga	CRISPR spacer
ctaacgagccgtgaacctcagcgcattcgcgt	Protospacer
... *.  ********** *****.******

50. spacer 3.6|2769622|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_007974 (Cupriavidus metallidurans CH34 megaplasmid, complete sequence) position: , mismatch: 11, identity: 0.656

tcggtcaaacaaatttaggcgacgatttaaca	CRISPR spacer
gtggtcaaacaaatttaggcaaggagccgctg	Protospacer
 .******************.* ** ... ..

51. spacer 3.6|2769622|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_007974 (Cupriavidus metallidurans CH34 megaplasmid, complete sequence) position: , mismatch: 11, identity: 0.656

tcggtcaaacaaatttaggcgacgatttaaca	CRISPR spacer
gtggtcaaacaaatttaggcaaggagccgctg	Protospacer
 .******************.* ** ... ..

52. spacer 3.6|2769622|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP046333 (Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3) position: , mismatch: 11, identity: 0.656

tcggtcaaacaaatttaggcgacgatttaaca	CRISPR spacer
gtggtcaaacaaatttaggcaaggagccgctg	Protospacer
 .******************.* ** ... ..

53. spacer 3.6|2769622|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP046333 (Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3) position: , mismatch: 11, identity: 0.656

tcggtcaaacaaatttaggcgacgatttaaca	CRISPR spacer
gtggtcaaacaaatttaggcaaggagccgctg	Protospacer
 .******************.* ** ... ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

80446 : 130315

Bacillus_phage(22.22%)

transposase,protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002208973.1\|80446_80935_-\|tRNA	tRNA (uridine(34)/cytosine(34)/5- carboxymethylaminomethyluridine(34)-2'-O)- methyltransferase TrmL	NA	NA	NA	NA
WP_002208972.1\|81123_82188_+	bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada	NA	NA	NA	NA
WP_002208971.1\|82236_83613_-	envelope stress sensor histidine kinase CpxA	W8CYF6	Bacillus_phage	1.5e-17	25.4
WP_002208970.1\|83609_84308_-	envelope stress response regulator transcription factor CpxR	Q6XM27	Feldmannia_irregularis_virus	1.8e-06	29.5
WP_002208969.1\|84481_84970_+	cell-envelope stress modulator CpxP	NA	NA	NA	NA
WP_002353252.1\|85686_86607_+\|transposase	Rpn family recombination-promoting nuclease/putative transposase	Q2A0A7	Sodalis_phage	8.6e-73	54.3
WP_002208967.1\|87168_88071_+	CDF family cation-efflux transporter FieF	NA	NA	NA	NA
WP_002208966.1\|88288_89272_+	6-phosphofructokinase	NA	NA	NA	NA
WP_002208965.1\|89492_90482_+	sulfate ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002218867.1\|90731_91508_-	molybdate ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002208963.1\|91625_93053_-	anion permease	NA	NA	NA	NA
WP_002208962.1\|93118_93832_-	4-carboxy-4-hydroxy-2-oxoadipate aldolase/oxaloacetate decarboxylase	NA	NA	NA	NA
WP_002208961.1\|93828_94566_-	PIG-L family deacetylase	NA	NA	NA	NA
WP_002208960.1\|94702_95938_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002208959.1\|96169_96937_-	triose-phosphate isomerase	NA	NA	NA	NA
WP_002208958.1\|97065_97680_-	DUF1454 family protein	NA	NA	NA	NA
WP_002208957.1\|97848_98283_+	DUF805 domain-containing protein	NA	NA	NA	NA
WP_002208956.1\|98623_99370_-	ferredoxin--NADP(+) reductase	NA	NA	NA	NA
WP_002208954.1\|101531_102380_-	aquaporin family protein	M1HWZ0	Paramecium_bursaria_Chlorella_virus	3.2e-13	27.5
WP_002208953.1\|103007_103247_+	septal ring assembly protein ZapB	NA	NA	NA	NA
WP_002213759.1\|103454_103913_-\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_001297096.1\|105644_106424_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_002430066.1\|106423_107446_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	6.0e-200	99.4
WP_002208949.1\|108357_109650_-	HlyD family secretion protein	NA	NA	NA	NA
WP_002215873.1\|109862_110102_+	hypothetical protein	NA	NA	NA	NA
WP_002228141.1\|110731_111316_+	DUF4232 domain-containing protein	NA	NA	NA	NA
WP_002208945.1\|111432_111918_-	ribonuclease E activity regulator RraA	NA	NA	NA	NA
WP_002208944.1\|112059_112977_-	1,4-dihydroxy-2-naphthoate polyprenyltransferase	NA	NA	NA	NA
WP_002208943.1\|113212_114544_-	HslU--HslV peptidase ATPase subunit	A0A191ZC11	Erwinia_phage	1.2e-43	29.8
WP_002208942.1\|114614_115139_-\|protease	ATP-dependent protease subunit HslV	NA	NA	NA	NA
WP_002208941.1\|115238_116084_-	cell division protein FtsN	NA	NA	NA	NA
WP_002216730.1\|116149_117178_-	DNA-binding transcriptional regulator CytR	NA	NA	NA	NA
WP_002208938.1\|117530_119729_-	primosomal protein N'	NA	NA	NA	NA
WP_002216737.1\|119971_120187_+	50S ribosomal protein L31	NA	NA	NA	NA
WP_002208936.1\|120747_121203_-	hypothetical protein	NA	NA	NA	NA
WP_002208935.1\|121551_121869_-	met regulon transcriptional regulator MetJ	NA	NA	NA	NA
WP_002208934.1\|123408_125844_+	bifunctional aspartate kinase/homoserine dehydrogenase II	NA	NA	NA	NA
WP_002208933.1\|126076_126961_+	methylenetetrahydrofolate reductase	NA	NA	NA	NA
WP_100067904.1\|127138_128493_-\|transposase	IS3-like element IS1661 family transposase	A0A1B1P773	Bacillus_phage	1.1e-55	44.7
WP_002208930.1\|128685_129444_-	DeoR/GlpR family transcriptional regulator	NA	NA	NA	NA
WP_002216348.1\|129478_130315_-\|protease	rhomboid family intramembrane serine protease GlpG	NA	NA	NA	NA

DBSCAN-SWA_2

504734 : 551206

Helicobacter_phage(28.57%)

plate,transposase,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002210509.1\|504734_507551_+\|tRNA	isoleucine--tRNA ligase	A0A2H4UVG0	Bodo_saltans_virus	1.0e-63	26.1
WP_002210508.1\|507550_508060_+	signal peptidase II	NA	NA	NA	NA
WP_002228112.1\|508127_508586_+	FKBP-type peptidyl-prolyl cis-trans isomerase	NA	NA	NA	NA
WP_002210506.1\|508566_509520_+	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	NA	NA	NA	NA
WP_002213775.1\|509901_510360_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210504.1\|510812_511634_+	4-hydroxy-tetrahydrodipicolinate reductase	NA	NA	NA	NA
WP_002224759.1\|512106_513282_+	glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit	R4TGJ8	Halovirus	6.9e-51	34.3
WP_002210502.1\|513297_516531_+	carbamoyl-phosphate synthase large subunit	NA	NA	NA	NA
WP_002210501.1\|516758_517373_-	LysE family translocator	NA	NA	NA	NA
WP_002210499.1\|517696_518497_+	threonine/serine exporter ThrE family protein	NA	NA	NA	NA
WP_002210498.1\|518493_518949_+	threonine/serine exporter	NA	NA	NA	NA
WP_002210497.1\|519098_519581_+	type 3 dihydrofolate reductase	A0A219UQN5	Bacillus_phage	4.7e-30	42.6
WP_002213775.1\|519792_520251_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_071525509.1\|520692_521007_+	DUF3757 domain-containing protein	NA	NA	NA	NA
WP_002210493.1\|521133_521598_+	DUF3757 domain-containing protein	NA	NA	NA	NA
WP_002210492.1\|521687_522557_-	bis(5'-nucleosyl)-tetraphosphatase (symmetrical) ApaH	NA	NA	NA	NA
WP_002210491.1\|522573_522951_-	Co2+/Mg2+ efflux protein ApaG	NA	NA	NA	NA
WP_002210490.1\|522964_523783_-	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA	NA	NA	NA	NA
WP_002210489.1\|523775_524771_-	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	NA	NA	NA	NA
WP_002210488.1\|524754_526059_-	peptidylprolyl isomerase SurA	NA	NA	NA	NA
WP_002228111.1\|526126_528469_-	LPS assembly protein LptD	NA	NA	NA	NA
WP_002210486.1\|528653_529487_+	co-chaperone DjlA	NA	NA	NA	NA
WP_002210485.1\|529784_530405_-\|tRNA	bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA	NA	NA	NA	NA
WP_002214747.1\|531627_532371_-	DUF2285 domain-containing protein	NA	NA	NA	NA
WP_002210482.1\|532700_533714_+	ImpA family type VI secretion system protein	NA	NA	NA	NA
WP_002210481.1\|533724_534285_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_002210480.1\|534293_535796_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_002210479.1\|535958_536477_+	type VI secretion system tube protein Hcp	NA	NA	NA	NA
WP_002210478.1\|536550_536994_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_002210477.1\|537026_538871_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_002210476.1\|538863_539847_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_002210475.1\|539864_542453_+	type VI secretion system ATPase TssH	A0A248SJW6	Salicola_phage	1.9e-77	28.7
WP_002210474.1\|542556_544905_+	type VI secretion system tip protein VgrG	A0A2H4JCD4	uncultured_Caudovirales_phage	2.1e-14	32.9
WP_002228110.1\|544917_545490_+	DUF2169 domain-containing protein	NA	NA	NA	NA
WP_002228109.1\|545514_547137_+	pentapeptide repeat-containing protein	NA	NA	NA	NA
WP_002214739.1\|547162_548266_+	pentapeptide repeat-containing protein	NA	NA	NA	NA
WP_002210473.1\|548258_548876_+	DUF3540 domain-containing protein	NA	NA	NA	NA
WP_002214737.1\|548881_549247_+	DUF4150 domain-containing protein	NA	NA	NA	NA
WP_002210471.1\|549239_549731_+	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA
WP_002210470.1\|549850_551206_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA

DBSCAN-SWA_3

572029 : 628626

Escherichia_phage(33.33%)

holin,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000255944.1\|572029_573052_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002397472.1\|573139_573391_+	sugar transporter	NA	NA	NA	NA
WP_002210456.1\|573631_574234_-	3-isopropylmalate dehydratase small subunit	NA	NA	NA	NA
WP_002210455.1\|574248_575679_-	3-isopropylmalate dehydratase large subunit	NA	NA	NA	NA
WP_002210454.1\|575680_576772_-	3-isopropylmalate dehydrogenase	NA	NA	NA	NA
WP_002210453.1\|576774_578337_-	2-isopropylmalate synthase	NA	NA	NA	NA
WP_002213775.1\|578483_578942_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210452.1\|579370_579586_-	hypothetical protein	NA	NA	NA	NA
WP_002216434.1\|580263_581220_+	transcriptional regulator LeuO	NA	NA	NA	NA
WP_002216437.1\|581751_583557_+	long-chain fatty acid--CoA ligase	A0A1V0SBX8	Catovirus	3.5e-38	23.2
WP_002228103.1\|584016_585744_+	acetolactate synthase 3 large subunit	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	7.8e-59	29.4
WP_002210448.1\|585746_586241_+	acetolactate synthase small subunit	NA	NA	NA	NA
WP_002213759.1\|586439_586898_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210447.1\|587402_588413_+	catabolite repressor/activator	NA	NA	NA	NA
WP_002210446.1\|588543_588984_-	L-alanine exporter AlaE	NA	NA	NA	NA
WP_087768171.1\|589441_589531_+	gluconate 5-dehydrogenase	NA	NA	NA	NA
WP_002210443.1\|590085_590544_+	division/cell wall cluster transcriptional repressor MraZ	NA	NA	NA	NA
WP_002210442.1\|590546_591509_+	16S rRNA (cytosine(1402)-N(4))-methyltransferase RsmH	NA	NA	NA	NA
WP_002210441.1\|591505_591823_+	cell division protein FtsL	NA	NA	NA	NA
WP_002210440.1\|591888_593652_+	peptidoglycan glycosyltransferase FtsI	NA	NA	NA	NA
WP_002210439.1\|593638_595126_+	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2, 6-diaminopimelate ligase	NA	NA	NA	NA
WP_002210438.1\|595122_596499_+	UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase	NA	NA	NA	NA
WP_002210437.1\|596492_597575_+	phospho-N-acetylmuramoyl-pentapeptide- transferase	NA	NA	NA	NA
WP_002210436.1\|597577_598894_+	UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase	NA	NA	NA	NA
WP_002210435.1\|598893_600096_+	cell division protein FtsW	NA	NA	NA	NA
WP_002210434.1\|600092_601163_+	undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase	NA	NA	NA	NA
WP_002216457.1\|601300_602776_+	UDP-N-acetylmuramate--L-alanine ligase	NA	NA	NA	NA
WP_002210432.1\|602768_603689_+	D-alanine--D-alanine ligase	NA	NA	NA	NA
WP_002228100.1\|603690_604518_+	cell division protein FtsQ	NA	NA	NA	NA
WP_002210431.1\|604544_605801_+	cell division protein FtsA	NA	NA	NA	NA
WP_002210430.1\|605873_607025_+	cell division protein FtsZ	NA	NA	NA	NA
WP_002228285.1\|607124_608045_+	UDP-3-O-acyl-N-acetylglucosamine deacetylase	NA	NA	NA	NA
WP_002210428.1\|608211_608736_-	DUF721 domain-containing protein	NA	NA	NA	NA
WP_002210427.1\|608764_609298_+	secA regulator SecM	NA	NA	NA	NA
WP_002210426.1\|609375_612090_+	preprotein translocase subunit SecA	NA	NA	NA	NA
WP_002210424.1\|612384_612771_+	8-oxo-dGTP diphosphatase MutT	A0A0B5CYJ3	Rhizoctonia_fumigata_mycovirus	8.4e-06	30.4
WP_001297096.1\|613032_613812_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|613811_614834_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002210421.1\|615112_615508_-	DoxX family protein	NA	NA	NA	NA
WP_002210420.1\|615811_616096_-	YqjK-like family protein	NA	NA	NA	NA
WP_002210419.1\|616092_616488_-\|holin	phage holin family protein	NA	NA	NA	NA
WP_002210418.1\|616490_616796_-	DUF883 domain-containing protein	NA	NA	NA	NA
WP_002210416.1\|616950_617331_-	DUF1090 domain-containing protein	NA	NA	NA	NA
WP_002210415.1\|617556_617946_-	EnvZ/OmpR regulon moderator MzrA	NA	NA	NA	NA
WP_002210414.1\|617942_618641_-	DedA family protein	NA	NA	NA	NA
WP_002218957.1\|618918_619452_-	hypothetical protein	NA	NA	NA	NA
WP_002210412.1\|619700_620495_-	transcriptional regulator ExuR	NA	NA	NA	NA
WP_002353699.1\|620757_622059_-	MFS transporter	NA	NA	NA	NA
WP_002210410.1\|622806_624216_+	glucuronate isomerase	NA	NA	NA	NA
WP_002210409.1\|624414_625866_+	tagaturonate reductase	NA	NA	NA	NA
WP_002210408.1\|625876_627367_+	altronate dehydratase	NA	NA	NA	NA
WP_002210407.1\|627519_628050_+	YgjV family protein	NA	NA	NA	NA
WP_002213775.1\|628167_628626_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0

DBSCAN-SWA_4

842802 : 860311

Tupanvirus(50.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002211388.1\|842802_848622_-	non-ribosomal peptide synthetase	A0A2K9L3I8	Tupanvirus	1.3e-41	31.3
WP_002214915.1\|848634_850323_-	non-ribosomal peptide synthetase	A0A2K9KZV5	Tupanvirus	3.1e-36	25.0
WP_002211387.1\|850330_856789_-	non-ribosomal peptide synthetase	A0A2K9KZV5	Tupanvirus	8.5e-42	25.0
WP_001297096.1\|856996_857776_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|857775_858798_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_099156340.1\|858879_859176_-	prepilin-type N-terminal cleavage/methylation domain-containing protein	NA	NA	NA	NA
WP_002211384.1\|859516_860311_-	thymidylate synthase	R4IFY1	Cronobacter_phage	8.9e-119	62.9

DBSCAN-SWA_5

1014357 : 1090183

Escherichia_phage(20.0%)

tRNA,plate,transposase,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000255944.1\|1014357_1015380_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002213759.1\|1015563_1016022_-\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002209965.1\|1016329_1018324_-	transketolase	NA	NA	NA	NA
WP_002209967.1\|1018814_1019567_+	M48 family metallopeptidase	NA	NA	NA	NA
WP_071525520.1\|1019712_1019823_+	gluconate 5-dehydrogenase	NA	NA	NA	NA
WP_002209968.1\|1019856_1020177_-	non-heme iron oxygenase ferredoxin subunit	NA	NA	NA	NA
WP_002209969.1\|1020336_1022316_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA
WP_002209971.1\|1023522_1024677_+	methionine adenosyltransferase	A0A2H4PQS6	Staphylococcus_phage	1.7e-126	62.1
WP_002228059.1\|1024869_1025382_+\|protease	SprT family zinc-dependent metalloprotease	NA	NA	NA	NA
WP_002209973.1\|1025479_1026187_+	deoxyribonuclease I	NA	NA	NA	NA
WP_002209975.1\|1026438_1027170_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA
WP_002209976.1\|1027195_1028155_+	glutathione synthase	NA	NA	NA	NA
WP_002209977.1\|1028270_1028834_+	YqgE/AlgH family protein	NA	NA	NA	NA
WP_002209978.1\|1028833_1029256_+	Holliday junction resolvase RuvX	NA	NA	NA	NA
WP_002209979.1\|1029435_1030320_+	N-carbamoylputrescine amidase	A7IVZ1	Paramecium_bursaria_Chlorella_virus	3.1e-80	51.0
WP_002209980.1\|1030323_1031439_+	agmatine deiminase	M1I1E2	Acanthocystis_turfacea_Chlorella_virus	3.0e-96	50.7
WP_002209981.1\|1031547_1032672_-	type IV pilus twitching motility protein PilT	NA	NA	NA	NA
WP_002215609.1\|1032691_1033390_+	YggS family pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_002209983.1\|1033522_1034344_+	pyrroline-5-carboxylate reductase	NA	NA	NA	NA
WP_002209984.1\|1034631_1035186_+	YggT family protein	NA	NA	NA	NA
WP_002215612.1\|1035182_1035473_+	YggU family protein	NA	NA	NA	NA
WP_002215614.1\|1035572_1036166_+	XTP/dITP diphosphatase	NA	NA	NA	NA
WP_002209987.1\|1036158_1037289_+	radical SAM family heme chaperone HemW	NA	NA	NA	NA
WP_002224905.1\|1037478_1046811_-	phage minor structural protein	NA	NA	NA	NA
WP_011566213.1\|1047309_1047555_-	DUF2884 family protein	NA	NA	NA	NA
WP_002228656.1\|1047512_1048043_-	DUF2884 family protein	NA	NA	NA	NA
WP_002209989.1\|1048154_1049081_-	glutaminase B	NA	NA	NA	NA
WP_002209990.1\|1049191_1049518_-	YggL family protein	NA	NA	NA	NA
WP_002209991.1\|1049517_1050237_-\|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	NA	NA	NA	NA
WP_002228057.1\|1050574_1051690_+	A/G-specific adenine glycosylase	NA	NA	NA	NA
WP_002209994.1\|1051867_1052140_+	oxidative damage protection protein	NA	NA	NA	NA
WP_002209995.1\|1052322_1053399_+	membrane-bound lytic murein transglycosylase MltC	NA	NA	NA	NA
WP_002209997.1\|1053698_1054799_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002209998.1\|1054902_1056936_+	TonB-dependent siderophore receptor	A0A0P0I887	Acinetobacter_phage	4.5e-05	26.1
WP_002209999.1\|1057018_1058002_-	ABC transporter permease	NA	NA	NA	NA
WP_002210000.1\|1058034_1059534_-	sugar ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	5.2e-19	31.7
WP_002210001.1\|1059579_1060539_-	substrate-binding domain-containing protein	NA	NA	NA	NA
WP_002210002.1\|1061094_1063257_-	ornithine decarboxylase SpeF	NA	NA	NA	NA
WP_002210005.1\|1064585_1065221_-	DUF2345 domain-containing protein	NA	NA	NA	NA
WP_086016632.1\|1065828_1066526_-\|transposase	IS1 family transposase	A0A0U2RK18	Escherichia_phage	1.3e-60	48.5
WP_002210008.1\|1066621_1067389_-	hypothetical protein	NA	NA	NA	NA
WP_002210009.1\|1067375_1069673_-	M23 family metallopeptidase	NA	NA	NA	NA
WP_002210010.1\|1069688_1070324_-	DUF2345 domain-containing protein	NA	NA	NA	NA
WP_002216110.1\|1071548_1071743_-	hypothetical protein	NA	NA	NA	NA
WP_016590715.1\|1071906_1072254_-	hypothetical protein	NA	NA	NA	NA
WP_002210011.1\|1072397_1074620_-	hydroxyethylthiazole kinase	NA	NA	NA	NA
WP_002210012.1\|1074634_1076983_-	type VI secretion system tip protein VgrG	A0A2H4JCD4	uncultured_Caudovirales_phage	3.1e-18	33.3
WP_002210013.1\|1076979_1079628_-	type VI secretion system ATPase TssH	K4FB40	Cronobacter_phage	4.8e-92	29.5
WP_002210014.1\|1080045_1080537_-	Hcp family type VI secretion system effector	NA	NA	NA	NA
WP_002228049.1\|1080540_1082277_-	OmpA family protein	NA	NA	NA	NA
WP_002210015.1\|1082276_1082963_-	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_002211664.1\|1082959_1084312_-\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_002215896.1\|1084323_1085868_-	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_002211662.1\|1085910_1086411_-	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_002215900.1\|1088686_1089082_-	lipoprotein	NA	NA	NA	NA
WP_002215902.1\|1089532_1090183_-\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA

DBSCAN-SWA_6

1232348 : 1287490

Escherichia_phage(31.25%)

transposase,integrase,protease

attL 1232280:1232339|attR 1278060:1280016

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1232280:1232339	attL	NA	NA	NA	NA
WP_001297096.1\|1232348_1233128_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|1233127_1234150_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002430089.1\|1234751_1235063_+	type II toxin-antitoxin system RelE/ParE family toxin	A0A141GEX6	Brucella_phage	4.7e-07	48.1
WP_002210705.1\|1235076_1235391_+	putative addiction module antidote protein	NA	NA	NA	NA
WP_002210707.1\|1235739_1236828_-	AAA family ATPase	A0A2H4JFA4	uncultured_Caudovirales_phage	1.4e-114	60.4
WP_002215950.1\|1236824_1237784_-	toprim domain-containing protein	A0A1W6JPG0	Morganella_phage	1.6e-50	41.0
WP_002215949.1\|1237776_1238319_-	ash family protein	NA	NA	NA	NA
WP_002210709.1\|1238318_1238519_-	AlpA family transcriptional regulator	A0A1V0E8E5	Vibrio_phage	1.6e-08	51.7
WP_002210710.1\|1238511_1239399_-\|integrase	integrase domain-containing protein	NA	NA	NA	NA
WP_002215946.1\|1240206_1240434_+	hypothetical protein	NA	NA	NA	NA
WP_002215945.1\|1240595_1242266_-	hypothetical protein	NA	NA	NA	NA
WP_002210712.1\|1242316_1243405_-	DUF4297 domain-containing protein	NA	NA	NA	NA
WP_002210713.1\|1243483_1244683_-\|integrase	tyrosine-type recombinase/integrase	A0A1B5FPC6	Escherichia_phage	2.2e-108	50.2
WP_002213759.1\|1244906_1245365_-\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210714.1\|1245999_1246482_-	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	3.4e-28	46.2
WP_011055694.1\|1246540_1247077_+	type II toxin-antitoxin system RatA family toxin	NA	NA	NA	NA
WP_002210716.1\|1247069_1247354_+	RnfH family protein	NA	NA	NA	NA
WP_002210717.1\|1247503_1247845_-	outer membrane protein assembly factor BamE	NA	NA	NA	NA
WP_002210718.1\|1247958_1249620_-	DNA repair protein RecN	NA	NA	NA	NA
WP_002210719.1\|1249706_1250588_-	NAD(+) kinase	NA	NA	NA	NA
WP_002210720.1\|1250711_1251290_+	nucleotide exchange factor GrpE	NA	NA	NA	NA
WP_002210721.1\|1251397_1252678_-	citrate synthase	NA	NA	NA	NA
WP_002210722.1\|1253387_1253777_+	succinate dehydrogenase cytochrome b556 subunit	NA	NA	NA	NA
WP_002210723.1\|1253770_1254118_+	succinate dehydrogenase membrane anchor subunit	NA	NA	NA	NA
WP_002210724.1\|1254118_1255885_+	succinate dehydrogenase flavoprotein subunit	NA	NA	NA	NA
WP_002210725.1\|1255934_1256651_+	succinate dehydrogenase iron-sulfur subunit	NA	NA	NA	NA
WP_002210726.1\|1257006_1259814_+	2-oxoglutarate dehydrogenase E1 component	NA	NA	NA	NA
WP_002210727.1\|1259843_1261067_+	2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase	NA	NA	NA	NA
WP_002210728.1\|1261179_1262346_+	ADP-forming succinate--CoA ligase subunit beta	NA	NA	NA	NA
WP_002210729.1\|1262345_1263218_+	succinate--CoA ligase subunit alpha	A0A2K9L1S3	Tupanvirus	3.6e-20	34.7
WP_002210730.1\|1263984_1265553_+	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA
WP_002210731.1\|1265567_1266707_+	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA
WP_002210732.1\|1266719_1266854_+	cytochrome bd-I oxidase subunit CydX	NA	NA	NA	NA
WP_011191945.1\|1266843_1267131_+	cyd operon protein YbgE	NA	NA	NA	NA
WP_002210734.1\|1267262_1267664_+	tol-pal system-associated acyl-CoA thioesterase	NA	NA	NA	NA
WP_002210735.1\|1267663_1268350_+	Tol-Pal system protein TolQ	NA	NA	NA	NA
WP_002210736.1\|1268362_1268791_+	colicin uptake protein TolR	NA	NA	NA	NA
WP_002210737.1\|1268902_1270069_+	cell envelope integrity protein TolA	NA	NA	NA	NA
WP_002210738.1\|1270188_1271481_+	Tol-Pal system protein TolB	NA	NA	NA	NA
WP_002210739.1\|1271531_1272038_+	peptidoglycan-associated lipoprotein Pal	NA	NA	NA	NA
WP_002210740.1\|1272047_1272857_+	cell division protein CpoB	NA	NA	NA	NA
WP_002210741.1\|1273692_1274754_+	quinolinate synthase NadA	NA	NA	NA	NA
WP_002210742.1\|1274875_1275601_+	nicotinamide riboside transporter PnuC	A0A2I7SAC7	Vibrio_phage	8.7e-20	28.6
WP_002210743.1\|1275715_1276654_-	CDF family zinc transporter ZitB	A0A1V0SED0	Indivirus	1.2e-10	42.0
WP_002210744.1\|1277102_1278119_+	3-deoxy-7-phosphoheptulonate synthase AroG	A0A0B6VT43	Edwardsiella_phage	2.8e-72	46.8
WP_001297096.1\|1278128_1278908_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|1278907_1279930_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002210745.1\|1279988_1280114_+	hypothetical protein	NA	NA	NA	NA
1278060:1280016	attR	NA	NA	NA	NA
WP_002210746.1\|1280295_1281048_-	2,3-diphosphoglycerate-dependent phosphoglycerate mutase	NA	NA	NA	NA
WP_002210747.1\|1281394_1281730_-	phosphate starvation-inducible protein PsiF	NA	NA	NA	NA
WP_002216812.1\|1282022_1282919_-	galactose-1-epimerase	NA	NA	NA	NA
WP_002216814.1\|1282939_1283092_-	hypothetical protein	NA	NA	NA	NA
WP_002210748.1\|1283085_1284237_-	galactokinase	NA	NA	NA	NA
WP_002210749.1\|1284233_1285286_-	galactose-1-phosphate uridylyltransferase	NA	NA	NA	NA
WP_002210750.1\|1285295_1286312_-	UDP-glucose 4-epimerase GalE	A0A2K9L1R4	Tupanvirus	3.0e-79	44.8
WP_002210751.1\|1286671_1287490_-\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA

DBSCAN-SWA_7

1310197 : 1383937

Helicobacter_phage(15.0%)

holin,transposase,protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002213775.1\|1310197_1310656_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002220180.1\|1310884_1312588_-\|holin	choline dehydrogenase	A0A1V0S9M4	Catovirus	9.4e-57	31.5
WP_002218281.1\|1312610_1314083_-	betaine-aldehyde dehydrogenase	NA	NA	NA	NA
WP_002218278.1\|1314140_1314737_-	transcriptional regulator BetI	NA	NA	NA	NA
WP_002430091.1\|1315101_1317123_+\|holin	choline transporter	A0A2I7QNT1	Vibrio_phage	6.0e-18	28.3
WP_002214199.1\|1317354_1318248_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002214197.1\|1318285_1319134_-	DMT family transporter	NA	NA	NA	NA
WP_002214195.1\|1319479_1320343_+	xanthosine phosphorylase	Q5YBA4	Grouper_iridovirus	2.3e-51	40.7
WP_002213775.1\|1321271_1321730_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210776.1\|1322144_1323074_+	DUF4097 domain-containing protein	NA	NA	NA	NA
WP_002228612.1\|1323373_1324312_+\|tRNA	tRNA dihydrouridine(16) synthase DusC	NA	NA	NA	NA
WP_002210778.1\|1324385_1324565_-	hypothetical protein	NA	NA	NA	NA
WP_002210780.1\|1324903_1325839_+	D-alanyl-D-alanine endopeptidase	NA	NA	NA	NA
WP_002210781.1\|1325959_1327672_-	D-lactate dehydrogenase	NA	NA	NA	NA
WP_002210782.1\|1327881_1328421_+	class IV adenylate cyclase	NA	NA	NA	NA
WP_002214185.1\|1328446_1328788_-	HNH nuclease family protein	NA	NA	NA	NA
WP_002210785.1\|1329100_1330204_+	suppressor of fused domain protein	NA	NA	NA	NA
WP_002210786.1\|1330388_1330637_+	GlsB/YeaQ/YmgE family stress response membrane protein	NA	NA	NA	NA
WP_002210787.1\|1330844_1331681_+	phosphonate ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	6.1e-17	30.1
WP_002210788.1\|1331717_1332647_+	phosphonate ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002210789.1\|1332749_1333610_+	phosphonate ABC transporter, permease protein PhnE	NA	NA	NA	NA
WP_002210790.1\|1333612_1334494_+	phosphonate ABC transporter, permease protein PhnE	NA	NA	NA	NA
WP_002210791.1\|1334739_1335213_+	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	1.7e-37	50.7
WP_002210792.1\|1335647_1336916_+	urea ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002210793.1\|1337039_1338641_+	urea ABC transporter permease subunit UrtB	NA	NA	NA	NA
WP_002210794.1\|1338640_1339717_+	urea ABC transporter permease subunit UrtC	NA	NA	NA	NA
WP_002210795.1\|1339713_1340550_+	urea ABC transporter ATP-binding protein UrtD	A0A285PWH2	Cedratvirus	4.2e-10	28.2
WP_002223523.1\|1340643_1341342_+	urea ABC transporter ATP-binding subunit UrtE	A0A2H4PQG7	Staphylococcus_phage	6.4e-12	25.6
WP_002210797.1\|1341456_1342314_+	2OG-Fe(II) oxygenase	NA	NA	NA	NA
WP_002210798.1\|1342337_1343753_+	aspartate aminotransferase family protein	NA	NA	NA	NA
WP_002210799.1\|1343907_1344762_-	3-mercaptopyruvate sulfurtransferase	NA	NA	NA	NA
WP_002214183.1\|1345497_1345965_+	glycine/betaine ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_079993142.1\|1345968_1346430_+	hypothetical protein	NA	NA	NA	NA
WP_002210801.1\|1346690_1347845_+	ABC transporter permease	NA	NA	NA	NA
WP_002210802.1\|1347841_1348780_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	6.4e-23	33.5
WP_002353933.1\|1348914_1349613_+	ABC transporter permease	NA	NA	NA	NA
WP_002210804.1\|1350090_1351425_+	arginine/agmatine antiporter	NA	NA	NA	NA
WP_002210805.1\|1351494_1353801_+	arginine decarboxylase	NA	NA	NA	NA
WP_002210806.1\|1353918_1354122_-	hypothetical protein	NA	NA	NA	NA
WP_002210807.1\|1354246_1355137_-	drug/metabolite exporter YedA	NA	NA	NA	NA
WP_002210809.1\|1355548_1356664_-	porin OmpF2	Q1MVN1	Enterobacteria_phage	2.1e-110	54.5
WP_002210810.1\|1356933_1359114_+	ATP-dependent DNA helicase DinG	A0A127AW80	Bacillus_phage	1.1e-44	26.3
WP_002210811.1\|1359181_1360621_-	catalase	A0A2K9L0T1	Tupanvirus	4.9e-99	38.8
WP_002210812.1\|1360981_1361524_+	YfaZ family protein	NA	NA	NA	NA
WP_002221775.1\|1361780_1362989_-	tyrosine transporter TyrP	NA	NA	NA	NA
WP_002210814.1\|1363607_1364801_+	nicotinamide mononucleotide deamidase-related protein YfaY	NA	NA	NA	NA
WP_002210815.1\|1364858_1365368_-\|protease	serine protease inhibitor ecotin	NA	NA	NA	NA
WP_002210816.1\|1365402_1365660_-	2Fe-2S ferredoxin-like protein	G9IAA2	Pseudomonas_phage	4.0e-20	54.9
WP_002210817.1\|1365663_1366794_-	ribonucleotide-diphosphate reductase subunit beta	G9IAA3	Pseudomonas_phage	7.6e-172	78.6
WP_002210818.1\|1366956_1369245_-	ribonucleoside-diphosphate reductase subunit alpha	I3UMG3	Colwellia_phage	1.1e-286	64.9
WP_002210820.1\|1369738_1370467_-	bifunctional 3-demethylubiquinone 3-O-methyltransferase/2-octaprenyl-6-hydroxy phenol methylase	NA	NA	NA	NA
WP_002210821.1\|1370728_1373404_+	DNA topoisomerase (ATP-hydrolyzing) subunit A	G3M9Z5	Bacillus_virus	4.0e-102	34.4
WP_002228028.1\|1373591_1376465_+	two-component system sensor histidine kinase RcsC	A0A1V0SGX0	Hokovirus	3.8e-42	28.3
WP_002210824.1\|1376532_1377186_-	transcriptional regulator RcsB	NA	NA	NA	NA
WP_002216094.1\|1377188_1377761_-	Hpt domain-containing protein	NA	NA	NA	NA
WP_002216093.1\|1377928_1379881_-	phosphotransferase RcsD	NA	NA	NA	NA
WP_002210825.1\|1379904_1381059_-	MFS transporter	NA	NA	NA	NA
WP_002210826.1\|1382161_1383277_+	porin OmpC	Q1MVN1	Enterobacteria_phage	9.6e-111	57.6
WP_002213775.1\|1383478_1383937_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0

DBSCAN-SWA_8

1399962 : 1420647

Pseudomonas_phage(20.0%)

plate,transposase,tail,coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002208856.1\|1399962_1401471_+\|tail	phage tail sheath subtilisin-like domain-containing protein	B5TK67	Pseudomonas_phage	2.4e-104	44.2
WP_002208855.1\|1401492_1401861_+\|tail	phage tail tube protein	NA	NA	NA	NA
WP_002208854.1\|1401862_1402162_+\|tail	phage tail assembly protein	NA	NA	NA	NA
WP_002208853.1\|1402282_1403776_+\|coat	coat protein	NA	NA	NA	NA
WP_002208852.1\|1404042_1405449_+	DNA circularization protein	Q8SBG8	Shigella_phage	2.1e-17	33.7
WP_002208850.1\|1405445_1406501_+\|tail	tail protein	M1PVV2	Vibrio_phage	1.3e-37	27.2
WP_002215460.1\|1406516_1407113_+\|plate	phage baseplate assembly protein	NA	NA	NA	NA
WP_002208848.1\|1407109_1407565_+	phage GP46 family protein	A0A0C4UR04	Shigella_phage	4.3e-17	43.8
WP_002208847.1\|1407568_1408705_+\|plate	baseplate J/gp47 family protein	B5TK75	Pseudomonas_phage	4.5e-31	30.5
WP_002215458.1\|1408701_1408962_+	DUF2313 domain-containing protein	NA	NA	NA	NA
WP_002208846.1\|1408958_1409306_+	DUF2313 domain-containing protein	A0A2P9JZK7	Alteromonadaceae_phage	6.4e-21	41.3
WP_002208845.1\|1409402_1410182_+\|tail	tail fiber protein	Q9MCR6	Enterobacteria_phage	7.1e-52	52.4
WP_002208843.1\|1410479_1411220_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA
WP_002208842.1\|1411510_1412947_+	6-phospho-beta-glucosidase	NA	NA	NA	NA
WP_002208841.1\|1413072_1413435_-	hypothetical protein	NA	NA	NA	NA
WP_002208840.1\|1414134_1414623_-	hypothetical protein	NA	NA	NA	NA
WP_002208839.1\|1414635_1415784_-	HNH endonuclease	NA	NA	NA	NA
WP_002230704.1\|1416140_1416524_-	DUF927 domain-containing protein	A0A1W6JPG0	Morganella_phage	7.8e-36	66.7
WP_002208837.1\|1416754_1418551_-	DUF3413 domain-containing protein	NA	NA	NA	NA
WP_002208836.1\|1418578_1418806_-	YejL family protein	NA	NA	NA	NA
WP_002208835.1\|1418983_1419988_+	nucleoid-associated protein YejK	A0A1V0E8C0	Vibrio_phage	3.1e-84	47.7
WP_002213775.1\|1420188_1420647_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0

DBSCAN-SWA_9

1532160 : 1541797

Planktothrix_phage(16.67%)

transposase,protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002211351.1\|1532160_1534110_+	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	8.8e-35	37.7
WP_002211350.1\|1534390_1534654_-	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	3.6e-16	59.7
WP_002211349.1\|1535014_1535335_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	8.2e-15	42.7
WP_002211348.1\|1535360_1537637_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	7.4e-166	41.7
WP_002213759.1\|1537929_1538388_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002211347.1\|1538759_1538978_-	translation initiation factor IF-1	NA	NA	NA	NA
WP_002211346.1\|1539143_1539854_-\|tRNA	leucyl/phenylalanyl-tRNA--protein transferase	NA	NA	NA	NA
WP_002211344.1\|1540072_1541797_-	cysteine/glutathione ABC transporter ATP-binding protein/permease CydC	A0A2R8FG22	Brazilian_cedratvirus	3.3e-17	31.8

DBSCAN-SWA_10

1585712 : 1659851

Helicobacter_phage(23.08%)

plate,transposase,protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002211311.1\|1585712_1586498_+\|tRNA	tRNA uridine 5-oxyacetic acid(34) methyltransferase CmoM	NA	NA	NA	NA
WP_002211310.1\|1586494_1587817_+	chromosome partition protein MukF	NA	NA	NA	NA
WP_002211309.1\|1587797_1588526_+	chromosome partition protein MukE	NA	NA	NA	NA
WP_002211308.1\|1588522_1592980_+	chromosome partition protein MukB	NA	NA	NA	NA
WP_002213759.1\|1593195_1593654_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002217987.1\|1593937_1595794_+	L,D-transpeptidase	NA	NA	NA	NA
WP_002211305.1\|1596017_1596566_+	YcbK family protein	A0A0K1LLY2	Rhodobacter_phage	7.8e-05	34.7
WP_002211304.1\|1596626_1597274_+	MBL fold metallo-hydrolase	A0A1X9I5D3	Streptococcus_phage	2.2e-22	32.3
WP_002430096.1\|1597427_1597544_-	hypothetical protein	NA	NA	NA	NA
WP_002211303.1\|1597697_1598888_-	aspartate/tyrosine/aromatic aminotransferase	NA	NA	NA	NA
WP_002354007.1\|1599144_1600224_-	porin OmpF	Q1MVN1	Enterobacteria_phage	3.2e-111	56.5
WP_002211301.1\|1600524_1601925_-\|tRNA	asparagine--tRNA ligase	A0A167RLM0	Powai_lake_megavirus	6.5e-80	35.2
WP_002228013.1\|1602423_1603629_-	nicotinate phosphoribosyltransferase	NA	NA	NA	NA
WP_002220013.1\|1604344_1606960_+	aminopeptidase N	NA	NA	NA	NA
WP_002211296.1\|1607577_1608588_+	quinone-dependent dihydroorotate dehydrogenase	NA	NA	NA	NA
WP_002211295.1\|1608770_1609322_+	cell division protein ZapC	NA	NA	NA	NA
WP_002211294.1\|1609347_1610460_-	MOSC N-terminal beta barrel domain-containing protein	NA	NA	NA	NA
WP_002211293.1\|1610559_1612680_+	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	NA	NA	NA
WP_002211292.1\|1612685_1614599_+	ABC transporter ATP-binding protein	A0A2K9L3Z8	Tupanvirus	1.5e-47	28.9
WP_002211291.1\|1614727_1616014_+	membrane integrity-associated transporter subunit PqiA	NA	NA	NA	NA
WP_002211290.1\|1616000_1617653_+	intermembrane transport protein PqiB	NA	NA	NA	NA
WP_002211289.1\|1617649_1618228_+	membrane integrity-associated transporter subunit PqiC	NA	NA	NA	NA
WP_002228015.1\|1618497_1618665_+	ribosome modulation factor	NA	NA	NA	NA
WP_002213775.1\|1618862_1619321_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_001297096.1\|1620481_1621261_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|1621260_1622283_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002211286.1\|1622916_1623105_+	hypothetical protein	NA	NA	NA	NA
WP_002220006.1\|1623370_1623889_-	bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase	NA	NA	NA	NA
WP_002224683.1\|1623957_1625709_-\|protease	Lon protease family protein	NA	NA	NA	NA
WP_002226586.1\|1625919_1626375_+	macrodomain Ter protein MatP	NA	NA	NA	NA
WP_002213775.1\|1626543_1627002_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002213066.1\|1627191_1628253_-	porin OmpA	NA	NA	NA	NA
WP_002213065.1\|1628610_1629117_-	cell division inhibitor SulA	NA	NA	NA	NA
WP_002213064.1\|1629345_1629981_+	TfoX/Sxy family DNA transformation protein	NA	NA	NA	NA
WP_002213063.1\|1630082_1632221_-	TIGR01666 family membrane protein	NA	NA	NA	NA
WP_002213062.1\|1632250_1632697_-	YccF domain-containing protein	NA	NA	NA	NA
WP_002213061.1\|1632890_1634876_+	DNA helicase IV	A7KV33	Bacillus_phage	5.3e-19	28.4
WP_002213060.1\|1634936_1635401_-	methylglyoxal synthase	NA	NA	NA	NA
WP_002213058.1\|1635579_1636260_-	DUF2057 family protein	NA	NA	NA	NA
WP_002213056.1\|1636575_1636992_+	CoA-binding protein	NA	NA	NA	NA
WP_002213054.1\|1637100_1637418_-	heat shock protein HspQ	NA	NA	NA	NA
WP_002213052.1\|1637478_1638669_-	23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI	W6LLI2	Streptococcus_phage	2.1e-26	28.1
WP_002213049.1\|1638762_1639041_+	acylphosphatase	NA	NA	NA	NA
WP_002213046.1\|1639092_1639422_-	sulfurtransferase TusE	NA	NA	NA	NA
WP_002213039.1\|1643067_1645485_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_002213038.1\|1645638_1646385_-	SDR family oxidoreductase	F2NZ40	Diadromus_pulchellus_ascovirus	3.3e-14	31.4
WP_002213036.1\|1647115_1647334_+	hypothetical protein	NA	NA	NA	NA
WP_002213034.1\|1647597_1648122_+	beta-hydroxyacyl-ACP dehydratase	NA	NA	NA	NA
WP_002213032.1\|1648111_1649395_+	beta-ketoacyl-[acyl-carrier-protein] synthase family protein	NA	NA	NA	NA
WP_002213030.1\|1649396_1650134_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_002213028.1\|1650149_1651388_+	hydroxymethylglutaryl-CoA synthase family protein	NA	NA	NA	NA
WP_002213026.1\|1651380_1652100_+	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA
WP_002213025.1\|1652101_1652854_+	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA
WP_002213024.1\|1652856_1653645_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_002228570.1\|1653731_1654172_+	lipocalin-like domain-containing protein	NA	NA	NA	NA
WP_002213017.1\|1654209_1654458_+	acyl carrier protein	NA	NA	NA	NA
WP_002213016.1\|1654556_1655405_+	ACP S-malonyltransferase	NA	NA	NA	NA
WP_002213014.1\|1656393_1656894_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_002214707.1\|1656936_1658487_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_002213011.1\|1658498_1659851_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA

DBSCAN-SWA_11

1684715 : 1734156

Escherichia_phage(16.67%)

plate,lysis,transposase,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002211940.1\|1684715_1686479_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_002211941.1\|1686442_1687528_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_002214552.1\|1687502_1688084_+	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA
WP_002211943.1\|1688083_1688536_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_002211944.1\|1688560_1689928_+	type VI secretion system ImpA family N-terminal domain-containing protein	NA	NA	NA	NA
WP_002211945.1\|1690139_1690763_-	hypothetical protein	NA	NA	NA	NA
WP_002227996.1\|1691445_1693041_+	ABC-F family ATPase	A0A2K9L0W2	Tupanvirus	6.1e-58	28.5
WP_002211947.1\|1693268_1693922_+	hypothetical protein	NA	NA	NA	NA
WP_002209743.1\|1693965_1695174_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002211948.1\|1695309_1696080_-	molybdopterin-synthase adenylyltransferase MoeB	NA	NA	NA	NA
WP_002211949.1\|1696081_1697356_-	molybdopterin molybdotransferase MoeA	NA	NA	NA	NA
WP_002211950.1\|1697890_1699201_-	darobactin maturation radical SAM/SPASM protein DarE	NA	NA	NA	NA
WP_002211951.1\|1699210_1699879_-	darobactin export ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	1.4e-35	40.0
WP_002211952.1\|1699880_1701143_-	darobactin export ABC transporter periplasmic adaptor subunit	NA	NA	NA	NA
WP_002215886.1\|1701144_1703505_-	darobactin export ABC transporter permease subunit	NA	NA	NA	NA
WP_002227980.1\|1703588_1703801_-	peptide antibiotic darobactin C	NA	NA	NA	NA
WP_002211956.1\|1704057_1704900_-	S-formylglutathione hydrolase	NA	NA	NA	NA
WP_002211957.1\|1704920_1706060_-	S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase	E3SJ82	Synechococcus_phage	5.2e-35	29.9
WP_002211958.1\|1706333_1707203_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002211959.1\|1707338_1708490_+	YbfB/YjiJ family MFS transporter	NA	NA	NA	NA
WP_002211960.1\|1708673_1709336_+	GTP cyclohydrolase I FolE	R9TJA5	Vibrio_phage	5.8e-55	53.5
WP_002211961.1\|1709390_1710557_+	DUF418 family protein	NA	NA	NA	NA
WP_002215885.1\|1711304_1712312_+	galactose/glucose ABC transporter substrate-binding protein MglB	NA	NA	NA	NA
WP_002211964.1\|1712541_1714062_+	galactose/methyl galactoside ABC transporter ATP-binding protein MglA	F2Y2R6	Organic_Lake_phycodnavirus	2.6e-10	29.9
WP_002211965.1\|1714082_1715093_+	galactose/methyl galactoside ABC transporter permease MglC	NA	NA	NA	NA
WP_002211966.1\|1715537_1716275_-	outer membrane permeability protein SanA	NA	NA	NA	NA
WP_002211968.1\|1716555_1718253_-	NAD-dependent malic enzyme	NA	NA	NA	NA
WP_002211969.1\|1718608_1719493_-	cytidine deaminase	NA	NA	NA	NA
WP_002211970.1\|1719818_1720514_-\|lysis	CidB/LrgB family autolysis modulator	NA	NA	NA	NA
WP_002211971.1\|1720510_1720918_-	CidA/LrgA family protein	NA	NA	NA	NA
WP_002211973.1\|1721159_1722341_-	MFS transporter	NA	NA	NA	NA
WP_002211974.1\|1722673_1723927_-	LVIVD repeat-containing protein	NA	NA	NA	NA
WP_002211975.1\|1723944_1725021_-	sugar ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002228565.1\|1725718_1726381_+	hypothetical protein	NA	NA	NA	NA
WP_001297096.1\|1726645_1727425_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|1727424_1728447_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002213775.1\|1728557_1729016_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002211870.1\|1729179_1731207_-\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	8.0e-55	27.1
WP_002211871.1\|1731471_1732584_+	iron-sulfur cluster carrier protein ApbC	NA	NA	NA	NA
WP_002211872.1\|1732828_1733470_+	uridine kinase	A0A1V0SAA3	Catovirus	1.0e-35	37.9
WP_002211873.1\|1733574_1734156_+	dCTP deaminase	I4AZP2	Saccharomonospora_phage	2.5e-33	43.2

DBSCAN-SWA_12

1777850 : 1833747

uncultured_virus(27.27%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002209743.1\|1777850_1779059_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002216388.1\|1779021_1782174_-	inverse autotransporter beta-barrel domain-containing protein	NA	NA	NA	NA
WP_002211911.1\|1783198_1784503_+	MFS transporter	NA	NA	NA	NA
WP_002211912.1\|1784511_1784934_-	thiol-disulfide oxidoreductase DCC family protein	NA	NA	NA	NA
WP_002216393.1\|1785361_1786102_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_002211916.1\|1786149_1786992_+	fumarylacetoacetate hydrolase family protein	NA	NA	NA	NA
WP_002211917.1\|1787023_1788301_+	L-fuconate dehydratase	NA	NA	NA	NA
WP_002211919.1\|1788597_1789743_+	FMN-dependent L-lactate dehydrogenase LldD	NA	NA	NA	NA
WP_002211920.1\|1789947_1791315_-	argininosuccinate synthase	A0A140XAJ5	Dickeya_phage	7.0e-63	93.7
WP_002224723.1\|1791608_1793039_+	EmmdR/YeeO family multidrug/toxin efflux MATE transporter	NA	NA	NA	NA
WP_002211922.1\|1793066_1794407_-	MFS transporter	NA	NA	NA	NA
WP_002211923.1\|1794442_1795324_-	polysaccharide deacetylase	NA	NA	NA	NA
WP_002217591.1\|1795900_1796596_+	hypothetical protein	NA	NA	NA	NA
WP_002211926.1\|1796685_1797225_+	DUF2058 domain-containing protein	NA	NA	NA	NA
WP_002213125.1\|1798091_1798721_-	response regulator transcription factor	NA	NA	NA	NA
WP_002213124.1\|1798978_1800271_-	TRAP transporter large permease	NA	NA	NA	NA
WP_002213122.1\|1800290_1800797_-	TRAP transporter small permease	NA	NA	NA	NA
WP_002213121.1\|1800920_1801913_-	TRAP transporter substrate-binding protein	NA	NA	NA	NA
WP_002213120.1\|1802435_1803176_+	4'-phosphopantetheinyl transferase superfamily protein	NA	NA	NA	NA
WP_002216586.1\|1803381_1803546_-	hypothetical protein	NA	NA	NA	NA
WP_002213113.1\|1803562_1805689_-	alpha-galactosidase	NA	NA	NA	NA
WP_042468818.1\|1805766_1807044_-	MFS transporter	NA	NA	NA	NA
WP_002209743.1\|1807068_1808277_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002217041.1\|1808239_1808536_-	biofilm formation regulator BssS	NA	NA	NA	NA
WP_002213110.1\|1809041_1809287_-	DNA damage-inducible protein I	K7PM44	Enterobacteria_phage	2.6e-13	51.3
WP_002213109.1\|1809599_1810646_-	dihydroorotase	NA	NA	NA	NA
WP_002213107.1\|1810880_1811168_+	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA
WP_002209743.1\|1811444_1812653_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002354074.1\|1812748_1816405_-	ribonuclease E	NA	NA	NA	NA
WP_002210927.1\|1816988_1817951_+	23S rRNA pseudouridine(955/2504/2580) synthase RluC	NA	NA	NA	NA
WP_002213759.1\|1818170_1818629_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210928.1\|1818783_1819380_-	septum formation inhibitor Maf	NA	NA	NA	NA
WP_002210930.1\|1819521_1820046_+	23S rRNA accumulation protein YceD	NA	NA	NA	NA
WP_002210931.1\|1820058_1820226_+	50S ribosomal protein L32	NA	NA	NA	NA
WP_002210932.1\|1820259_1821294_+	phosphate acyltransferase PlsX	NA	NA	NA	NA
WP_002210933.1\|1821300_1822251_+	ketoacyl-ACP synthase III	NA	NA	NA	NA
WP_002210934.1\|1822288_1823218_+	ACP S-malonyltransferase	NA	NA	NA	NA
WP_002210935.1\|1823231_1823966_+	3-oxoacyl-ACP reductase FabG	Q06VL0	Trichoplusia_ni_ascovirus	7.7e-16	33.1
WP_002220787.1\|1824119_1824356_+	acyl carrier protein	B2ZXV3	Ralstonia_phage	7.7e-10	45.6
WP_002213079.1\|1824450_1825692_+	beta-ketoacyl-ACP synthase II	NA	NA	NA	NA
WP_002213775.1\|1825891_1826350_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002213080.1\|1826765_1827572_+	aminodeoxychorismate lyase	NA	NA	NA	NA
WP_002217396.1\|1827860_1828886_+	endolytic transglycosylase MltG	NA	NA	NA	NA
WP_002213082.1\|1828875_1829514_+	dTMP kinase	Q2Z0N0	Pseudomonas_phage	4.6e-25	36.1
WP_002213083.1\|1829513_1830536_+	DNA polymerase III subunit delta'	NA	NA	NA	NA
WP_002213084.1\|1830550_1831360_+	metal-dependent hydrolase	NA	NA	NA	NA
WP_002213085.1\|1831665_1833099_+	PTS glucose transporter subunit IIBC	NA	NA	NA	NA
WP_002213759.1\|1833288_1833747_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0

DBSCAN-SWA_13

1929717 : 1947705

Escherichia_phage(50.0%)

transposase,protease,coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000255944.1\|1929717_1930740_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002215943.1\|1931146_1931536_+	ASCH domain-containing protein	NA	NA	NA	NA
WP_002210859.1\|1931645_1931885_-	YebV family protein	NA	NA	NA	NA
WP_002210858.1\|1932092_1933082_-\|coat	spore coat protein U domain-containing protein	NA	NA	NA	NA
WP_002210857.1\|1933287_1935735_-	fimbrial biogenesis outer membrane usher protein	NA	NA	NA	NA
WP_002210856.1\|1935922_1936675_-	molecular chaperone	NA	NA	NA	NA
WP_002216611.1\|1936705_1937263_-\|coat	spore coat U domain-containing protein	NA	NA	NA	NA
WP_002216613.1\|1937283_1937814_-\|coat	spore coat U domain-containing protein	NA	NA	NA	NA
WP_002210852.1\|1937819_1938374_-\|coat	spore coat U domain-containing protein	NA	NA	NA	NA
WP_010981402.1\|1938852_1941504_-	PqiB family protein	NA	NA	NA	NA
WP_002367629.1\|1941472_1942720_-	membrane integrity lipid transport subunit YebS	NA	NA	NA	NA
WP_002210850.1\|1942951_1943449_+	GAF domain-containing protein	NA	NA	NA	NA
WP_002210849.1\|1943544_1944258_+	RNA chaperone ProQ	NA	NA	NA	NA
WP_002210848.1\|1944277_1946350_+	carboxy terminal-processing peptidase	A0A0R6PIZ1	Moraxella_phage	4.0e-86	34.8
WP_002210847.1\|1946823_1947705_+\|protease	protease HtpX	NA	NA	NA	NA

DBSCAN-SWA_14

2352408 : 2452065

103

Escherichia_phage(14.81%)

lysis,tail,holin,tRNA,transposase,integrase

attL 2362960:2362990|attR 2404684:2404714

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002211184.1\|2352408_2353107_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB	NA	NA	NA	NA
WP_002211183.1\|2353243_2353849_+	Slp family lipoprotein	NA	NA	NA	NA
WP_087768167.1\|2353849_2353957_-	gluconate 5-dehydrogenase	NA	NA	NA	NA
WP_002211182.1\|2354491_2356180_+	long-chain-fatty-acid--CoA ligase FadD	A0A2H4PQM9	Staphylococcus_phage	1.8e-31	28.9
WP_002211181.1\|2356339_2357461_+	ribonuclease D	NA	NA	NA	NA
WP_002211180.1\|2357697_2357967_-	cell division topological specificity factor MinE	NA	NA	NA	NA
WP_002211179.1\|2357970_2358783_-	septum site-determining protein MinD	NA	NA	NA	NA
WP_002220631.1\|2358807_2359494_-	septum site-determining protein MinC	NA	NA	NA	NA
WP_002211743.1\|2360214_2360487_+	YcgL domain-containing protein	NA	NA	NA	NA
WP_002215627.1\|2360627_2361713_+	lytic murein transglycosylase	NA	NA	NA	NA
WP_002211740.1\|2361783_2362440_+	fumarylacetoacetate hydrolase family protein	NA	NA	NA	NA
WP_002211739.1\|2362542_2362989_+	YcgN family cysteine cluster protein	NA	NA	NA	NA
2362960:2362990	attL	NA	NA	NA	NA
WP_002211738.1\|2363015_2364254_-\|integrase	site-specific integrase	Q20GI2	Phage_258-320	2.3e-121	53.3
WP_000255944.1\|2364323_2365346_+\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_001297096.1\|2365345_2366125_+	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_002215632.1\|2366292_2366553_-	excisionase family protein	Q859D3	Escherichia_coli_phage	1.7e-10	42.9
WP_002211736.1\|2367577_2368024_+	recombination protein NinB	A0A2H4J8D9	uncultured_Caudovirales_phage	3.9e-47	62.5
WP_002211735.1\|2368097_2368703_+	recombination protein NinG	A0A1P8DTE0	Proteus_phage	2.8e-56	56.9
WP_002215636.1\|2368703_2369093_+	antitermination protein	A0A1W6JNX1	Morganella_phage	1.4e-45	68.8
WP_002215638.1\|2369096_2369315_+	ash family protein	NA	NA	NA	NA
WP_002211732.1\|2369363_2369927_+	Bro-N domain-containing protein	B6SD63	Bacteriophage	9.4e-30	58.0
WP_002211731.1\|2370350_2370560_+	hypothetical protein	NA	NA	NA	NA
WP_002215644.1\|2370556_2370832_-	hypothetical protein	NA	NA	NA	NA
WP_002430108.1\|2371077_2371275_+\|holin	phage holin family protein	B6SD15	Bacteriophage	4.9e-18	64.4
WP_002211730.1\|2371305_2371818_+	lysozyme	I6PBN2	Cronobacter_phage	9.7e-50	61.6
WP_002211729.1\|2371802_2372261_+\|lysis	lysis protein	A0A2H4JHL8	uncultured_Caudovirales_phage	4.9e-21	45.3
WP_002211727.1\|2372806_2373520_+	phage antirepressor KilAC domain-containing protein	Q5MBW0	Stx1-converting_phage	7.6e-69	60.2
WP_002211725.1\|2373976_2374612_+	hypothetical protein	I6S676	Salmonella_phage	7.2e-87	71.4
WP_002211724.1\|2374642_2375092_+	DUF2280 domain-containing protein	I6S1P9	Salmonella_phage	1.0e-47	72.9
WP_002211723.1\|2375095_2375680_+	hypothetical protein	A0A0R6PHH0	Moraxella_phage	4.8e-69	70.7
WP_002209743.1\|2375727_2376936_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002211722.1\|2376940_2377915_+	hypothetical protein	A0A1W6JNY3	Morganella_phage	2.3e-153	81.1
WP_002228445.1\|2377914_2378643_+	hypothetical protein	A0A1B0VMH0	Pseudomonas_phage	4.6e-61	51.4
WP_002228446.1\|2378661_2379303_+	DUF4055 domain-containing protein	A0A1B0VMH0	Pseudomonas_phage	3.8e-59	54.1
WP_002211721.1\|2379303_2380416_+	hypothetical protein	I6PD76	Cronobacter_phage	6.0e-121	58.2
WP_002211720.1\|2380537_2381311_+	hypothetical protein	A0A1B0VMG1	Pseudomonas_phage	2.8e-69	62.3
WP_002211719.1\|2381324_2382530_+	Ig-like domain-containing protein	A0A1B0VMF8	Pseudomonas_phage	1.8e-142	79.2
WP_002211718.1\|2382577_2383060_+	hypothetical protein	G8C7P9	Escherichia_phage	6.4e-27	46.1
WP_002211717.1\|2383056_2383311_+	hypothetical protein	J9Q7U0	Salmonella_phage	2.2e-18	53.1
WP_002211716.1\|2383312_2383663_+	hypothetical protein	I6PD77	Cronobacter_phage	6.9e-31	56.0
WP_002211715.1\|2383664_2384249_+	hypothetical protein	G8C7Q1	Escherichia_phage	3.6e-48	52.1
WP_002211714.1\|2384245_2384653_+	DUF4128 domain-containing protein	NA	NA	NA	NA
WP_002211713.1\|2384718_2385639_+	Ig-like domain-containing protein	I6PBN6	Cronobacter_phage	4.4e-61	49.1
WP_002211712.1\|2385651_2385963_+	hypothetical protein	I6PDG2	Cronobacter_phage	1.4e-30	58.3
WP_071525538.1\|2386010_2386271_+	DUF1799 domain-containing protein	A0A0S2SY90	Pseudomonas_phage	3.7e-13	50.0
WP_002211711.1\|2386271_2389775_+\|tail	phage tail tape measure protein	K7PMB9	Enterobacterial_phage	5.2e-118	33.2
WP_002211710.1\|2389777_2390119_+\|tail	phage tail protein	Q6UAW6	Klebsiella_phage	1.7e-21	50.0
WP_002213759.1\|2390423_2390882_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002211709.1\|2391002_2391755_+\|tail	phage minor tail protein L	A0A1W6JNX9	Morganella_phage	9.4e-102	67.7
WP_002211708.1\|2391757_2392468_+	C40 family peptidase	K7P6F5	Enterobacteria_phage	1.3e-108	76.8
WP_002211707.1\|2392728_2393361_+	hypothetical protein	NA	NA	NA	NA
WP_002211706.1\|2393439_2393871_-	Arc family DNA-binding protein	G9L6D6	Escherichia_phage	2.5e-30	58.4
WP_002211705.1\|2393994_2394162_+	hypothetical protein	G9L6D7	Escherichia_phage	5.2e-13	61.8
WP_002211704.1\|2394235_2395243_+	Bro-N domain-containing protein	A0A2H4J0P1	uncultured_Caudovirales_phage	4.1e-36	33.0
WP_002214482.1\|2395341_2395893_+	zinc ribbon domain-containing protein	S4TR42	Salmonella_phage	9.5e-27	58.0
WP_002211701.1\|2396035_2396251_+	hypothetical protein	NA	NA	NA	NA
WP_002211700.1\|2396306_2396927_+\|tail	tail assembly protein	K7PGY0	Enterobacteria_phage	3.2e-55	57.0
WP_002211699.1\|2396968_2397133_+	hypothetical protein	NA	NA	NA	NA
WP_002359202.1\|2397101_2397323_-	hypothetical protein	NA	NA	NA	NA
WP_002211698.1\|2397498_2400702_+	host specificity protein J	F1C571	Cronobacter_phage	0.0e+00	60.5
WP_002211697.1\|2400701_2401700_+	hypothetical protein	NA	NA	NA	NA
WP_002211696.1\|2401716_2402634_+	hypothetical protein	NA	NA	NA	NA
WP_002211695.1\|2402644_2403064_+\|tail	tail fiber assembly protein	B6SCW7	Bacteriophage	5.7e-08	42.0
WP_002209743.1\|2403284_2404493_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002214492.1\|2404797_2405970_-	MFS transporter	NA	NA	NA	NA
2404684:2404714	attR	NA	NA	NA	NA
WP_002211693.1\|2405973_2407173_-	cysteine desulfurase	A0A1X7QGF3	Faustovirus	2.4e-38	29.6
WP_002211692.1\|2407189_2407930_-	hypothetical protein	NA	NA	NA	NA
WP_002214494.1\|2409021_2409378_+	hypothetical protein	NA	NA	NA	NA
WP_002227934.1\|2409794_2410325_-	disulfide bond formation protein DsbB	NA	NA	NA	NA
WP_002211689.1\|2410560_2412135_-	sodium/proton antiporter NhaB	NA	NA	NA	NA
WP_002211688.1\|2412378_2413098_+	fatty acid metabolism transcriptional regulator FadR	NA	NA	NA	NA
WP_002211687.1\|2413315_2414851_-	SpoVR family protein	NA	NA	NA	NA
WP_002211686.1\|2415315_2416620_+	D-amino acid dehydrogenase	NA	NA	NA	NA
WP_002216508.1\|2416635_2417838_-	multidrug effflux MFS transporter	S4TR35	Salmonella_phage	7.6e-29	29.1
WP_002211685.1\|2418102_2418972_-	pirin family protein	NA	NA	NA	NA
WP_002211684.1\|2419169_2420075_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002211683.1\|2420109_2421228_-	DMT family transporter	NA	NA	NA	NA
WP_002216501.1\|2421335_2422610_-	YeaH/YhbH family protein	A0A140HLI1	Bacillus_phage	1.5e-11	37.1
WP_002211681.1\|2422759_2424694_-	protein kinase YeaG	NA	NA	NA	NA
WP_002430110.1\|2425137_2425887_+	MipA/OmpV family protein	NA	NA	NA	NA
WP_002211679.1\|2425959_2426835_-	D-hexose-6-phosphate mutarotase	NA	NA	NA	NA
WP_002224141.1\|2427148_2428144_-	glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA
WP_002211677.1\|2428491_2428905_+	peptide-methionine (R)-S-oxide reductase MsrB	NA	NA	NA	NA
WP_002217933.1\|2428975_2429248_+	YeaC family protein	NA	NA	NA	NA
WP_002211676.1\|2429381_2430029_-	bifunctional nicotinamidase/pyrazinamidase	A0A2K9L6K4	Tupanvirus	1.8e-21	33.0
WP_002211675.1\|2430043_2431060_-	asparaginase	NA	NA	NA	NA
WP_002211674.1\|2431176_2433027_-	signal peptide peptidase SppA	NA	NA	NA	NA
WP_002211673.1\|2433189_2433741_+	NAD(P)H nitroreductase	NA	NA	NA	NA
WP_002211671.1\|2433965_2435012_+	selenide, water dikinase SelD	NA	NA	NA	NA
WP_002211670.1\|2435073_2436999_+	DNA topoisomerase III	A0A1X9I6W8	Streptococcus_phage	4.2e-37	30.4
WP_002211669.1\|2436995_2437286_+	DUF1496 domain-containing protein	NA	NA	NA	NA
WP_002211668.1\|2437298_2437685_-	pyrimidine (deoxy)nucleoside triphosphate diphosphatase	NA	NA	NA	NA
WP_002211667.1\|2437782_2438589_-	exodeoxyribonuclease III	NA	NA	NA	NA
WP_002211665.1\|2439398_2440259_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002209743.1\|2441130_2442339_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002210667.1\|2442301_2443171_-	formyltetrahydrofolate deformylase	M4QRX9	Synechococcus_phage	5.5e-13	37.3
WP_002210666.1\|2443254_2443719_-	YchJ family protein	NA	NA	NA	NA
WP_002210665.1\|2445052_2446069_+	two-component system response regulator RssB	NA	NA	NA	NA
WP_002210664.1\|2446375_2447722_+	UDP-glucose/GDP-mannose dehydrogenase family protein	A0A127AXI2	Bacillus_phage	1.9e-81	38.3
WP_002210661.1\|2448156_2448555_-	DNA-binding transcriptional regulator H-NS	NA	NA	NA	NA
WP_002210659.1\|2449304_2449895_+	thymidine kinase	A0A1Z1LYD5	Serratia_phage	1.5e-54	55.8
WP_001297096.1\|2450263_2451043_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|2451042_2452065_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0

DBSCAN-SWA_15

3098414 : 3153665

Helicobacter_phage(16.67%)

transposase,integrase,tRNA

attL 3098307:3098366|attR 3153099:3153810

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3098307:3098366	attL	NA	NA	NA	NA
WP_002213775.1\|3098414_3098873_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002209726.1\|3099151_3100162_+	aspartate-semialdehyde dehydrogenase	NA	NA	NA	NA
WP_002209727.1\|3100161_3101043_+\|tRNA	tRNA pseudouridine(38-40) synthase TruA	NA	NA	NA	NA
WP_002209728.1\|3101199_3101862_+	DedA family protein	NA	NA	NA	NA
WP_002209729.1\|3102092_3103007_+	acetyl-CoA carboxylase, carboxyltransferase subunit beta	NA	NA	NA	NA
WP_002209730.1\|3103255_3104560_+	bifunctional tetrahydrofolate synthase/dihydrofolate synthase	NA	NA	NA	NA
WP_002209731.1\|3104679_3105402_+	cell division protein DedD	NA	NA	NA	NA
WP_002209732.1\|3105713_3106223_+	colicin V production protein	NA	NA	NA	NA
WP_002209733.1\|3106235_3107753_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	5.0e-86	42.4
WP_002209734.1\|3107999_3108572_+	UbiX family flavin prenyltransferase	NA	NA	NA	NA
WP_002216029.1\|3109096_3109879_+	histidine ABC transporter substrate-binding protein HisJ	NA	NA	NA	NA
WP_002209736.1\|3109981_3110668_+	histidine ABC transporter permease HisQ	NA	NA	NA	NA
WP_002209737.1\|3110664_3111381_+	ABC transporter permease	NA	NA	NA	NA
WP_002209738.1\|3111394_3112192_+	histidine ABC transporter ATP-binding protein HisP	G9BWD6	Planktothrix_phage	7.1e-23	33.5
WP_002209739.1\|3112315_3113224_-	TIGR01777 family protein	NA	NA	NA	NA
WP_002209740.1\|3113577_3114270_+	EAL domain-containing protein	NA	NA	NA	NA
WP_002227850.1\|3114470_3115046_+	phosphodiesterase	NA	NA	NA	NA
WP_002209742.1\|3115267_3115816_+	NUDIX hydrolase YfcD	NA	NA	NA	NA
WP_002222248.1\|3115932_3117189_-	PTS ascorbate transporter subunit IIC	NA	NA	NA	NA
WP_002209743.1\|3117328_3118537_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_071525544.1\|3118600_3120103_+	penicillin-binding protein 1C	NA	NA	NA	NA
WP_002209745.1\|3120315_3120561_-	helix-turn-helix domain-containing protein	A0A2I7S995	Vibrio_phage	7.2e-19	64.2
WP_002209746.1\|3122082_3122484_+	DUF1240 domain-containing protein	NA	NA	NA	NA
WP_002209748.1\|3122716_3123118_+	DUF1240 domain-containing protein	NA	NA	NA	NA
WP_002209749.1\|3123129_3123702_-	Hcp family type VI secretion system effector	NA	NA	NA	NA
WP_002227852.1\|3123725_3123977_-	hypothetical protein	NA	NA	NA	NA
WP_002209751.1\|3124015_3124255_-	hypothetical protein	NA	NA	NA	NA
WP_002209752.1\|3125063_3126980_+	autotransporter adhesin YapC	NA	NA	NA	NA
WP_002224869.1\|3127103_3127226_+	hypothetical protein	NA	NA	NA	NA
WP_002209753.1\|3127514_3128096_+	AbiEi antitoxin N-terminal domain-containing protein	NA	NA	NA	NA
WP_002209743.1\|3128497_3129706_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8
WP_002209756.1\|3130157_3132365_+	DUF4401 domain-containing protein	NA	NA	NA	NA
WP_002209757.1\|3132357_3132888_+	GDYXXLXY domain-containing protein	NA	NA	NA	NA
WP_002209758.1\|3133046_3135428_+	glycoside hydrolase family 3 C-terminal domain-containing protein	NA	NA	NA	NA
WP_002209759.1\|3135506_3137135_-	hypothetical protein	NA	NA	NA	NA
WP_002209762.1\|3137607_3138459_+	aldo/keto reductase	A0A2H4PQR8	Staphylococcus_phage	1.2e-49	41.1
WP_002209763.1\|3138484_3139474_+	aldo/keto reductase	NA	NA	NA	NA
WP_002209764.1\|3139528_3140422_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_000255944.1\|3140515_3141538_+\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_001297096.1\|3141537_3142317_+	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_002215253.1\|3142683_3142989_-	hypothetical protein	NA	NA	NA	NA
WP_002209765.1\|3143085_3143487_-	hypothetical protein	NA	NA	NA	NA
WP_002209766.1\|3143468_3144788_-	phosphatase PAP2/dual specificity phosphatase family protein	NA	NA	NA	NA
WP_002215255.1\|3144780_3146544_-	bifunctional alpha/beta hydrolase/class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_002209768.1\|3146540_3147173_-	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA
WP_002209769.1\|3147182_3148112_-	phosphatidate cytidylyltransferase	NA	NA	NA	NA
WP_002209770.1\|3148104_3148707_-	CDP-alcohol phosphatidyltransferase family protein	NA	NA	NA	NA
WP_002354559.1\|3149106_3149313_-	hypothetical protein	NA	NA	NA	NA
WP_079866998.1\|3149524_3149803_+\|integrase	tyrosine-type recombinase/integrase	A0A192Y6Q1	Salmonella_phage	4.2e-31	73.5
WP_002215266.1\|3149885_3150224_+	hypothetical protein	NA	NA	NA	NA
WP_002228356.1\|3150359_3150857_+	hypothetical protein	NA	NA	NA	NA
WP_002215268.1\|3150970_3151171_+	hypothetical protein	NA	NA	NA	NA
WP_002215270.1\|3151429_3151612_+	AlpA family phage regulatory protein	NA	NA	NA	NA
WP_002209774.1\|3151966_3152833_+	bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	A0A249XZQ2	Enterococcus_phage	2.2e-30	34.1
WP_002209775.1\|3152847_3153060_+	ribosome-associated protein YbcJ	NA	NA	NA	NA
WP_002213775.1\|3153206_3153665_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
3153099:3153810	attR	NA	NA	NA	NA

DBSCAN-SWA_16

3218017 : 3285781

Helicobacter_phage(14.29%)

plate,transposase,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002209820.1\|3218017_3219214_-\|tRNA	bifunctional tRNA (adenosine(37)-C2)-methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN	NA	NA	NA	NA
WP_002209821.1\|3219475_3219904_-	nucleoside-diphosphate kinase	A0A167REB2	Powai_lake_megavirus	1.1e-17	39.4
WP_002215515.1\|3220230_3222651_-	peptidase inhibitor family I36 protein	NA	NA	NA	NA
WP_146737630.1\|3223340_3227729_+	autotransporter YapA	NA	NA	NA	NA
WP_002215508.1\|3228286_3231445_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA
WP_002215505.1\|3231410_3231731_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA
WP_071525548.1\|3231809_3231935_-	gluconate 5-dehydrogenase	NA	NA	NA	NA
WP_002209828.1\|3232068_3233022_-	enhanced serine sensitivity protein SseB	NA	NA	NA	NA
WP_002209829.1\|3233100_3234399_-	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	9.7e-38	39.0
WP_002209830.1\|3234538_3234739_-	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_002209831.1\|3234768_3235104_-	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_002209832.1\|3235106_3237059_-	Fe-S protein assembly chaperone HscA	F2Y2E1	Organic_Lake_phycodnavirus	1.8e-96	37.8
WP_002209833.1\|3237301_3237826_-	co-chaperone HscB	NA	NA	NA	NA
WP_002209834.1\|3237936_3238260_-	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	7.8e-21	47.7
WP_002209835.1\|3238529_3238916_-	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	77.3
WP_002209836.1\|3238946_3240176_-	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	8.6e-36	33.1
WP_002222202.1\|3240229_3240724_-	Fe-S cluster assembly transcriptional regulator IscR	NA	NA	NA	NA
WP_002217034.1\|3240879_3241653_-\|tRNA	tRNA (cytosine(32)/uridine(32)-2'-O)-methyltransferase TrmJ	NA	NA	NA	NA
WP_002213305.1\|3241771_3242575_+	inositol-1-monophosphatase	NA	NA	NA	NA
WP_002213775.1\|3242778_3243237_+\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002217028.1\|3243383_3244406_-	nickel/cobalt transporter	NA	NA	NA	NA
WP_002213310.1\|3244396_3245071_-	DUF1007 family protein	NA	NA	NA	NA
WP_002213314.1\|3245212_3246574_+	stationary phase inducible protein CsiE	NA	NA	NA	NA
WP_002213316.1\|3246570_3247728_-	3-phenylpropionate MFS transporter	NA	NA	NA	NA
WP_002227864.1\|3248079_3248628_-	attachment invasion locus protein Ail	A0A1B0VBR9	Salmonella_phage	6.8e-25	36.7
WP_002223388.1\|3248737_3248920_-	hypothetical protein	NA	NA	NA	NA
WP_002211552.1\|3249071_3250325_-	serine hydroxymethyltransferase	A0A219Y950	Aeromonas_phage	2.8e-98	52.5
WP_002211553.1\|3250865_3252056_+	NO-inducible flavohemoprotein	NA	NA	NA	NA
WP_002211554.1\|3253588_3253927_-	nitrogen regulatory protein P-II	NA	NA	NA	NA
WP_002211555.1\|3253941_3255564_-	NAD+ synthase	A0A2L0UZF5	Agrobacterium_phage	1.1e-94	36.5
WP_002211556.1\|3255723_3257061_-	two-component system response regulator GlrR	W8CYM9	Bacillus_phage	1.2e-11	37.4
WP_072120864.1\|3257023_3258046_-	two-component system QseEF-associated lipoprotein QseG	NA	NA	NA	NA
WP_002216114.1\|3258094_3259531_-	HAMP domain-containing histidine kinase	W8CYF6	Bacillus_phage	3.1e-13	23.8
WP_002213759.1\|3259751_3260210_-\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002216113.1\|3260199_3260424_-	hypothetical protein	NA	NA	NA	NA
WP_002211559.1\|3261436_3261997_+	hypothetical protein	NA	NA	NA	NA
WP_002211560.1\|3262448_3262898_+	hypothetical protein	NA	NA	NA	NA
WP_032487261.1\|3263205_3263313_+	hypothetical protein	NA	NA	NA	NA
WP_002211561.1\|3263309_3267200_-	phosphoribosylformylglycinamidine synthase	A9YX36	Burkholderia_phage	8.8e-127	59.5
WP_002211562.1\|3267515_3268976_+	membrane-bound lytic murein transglycosylase MltF	I1VXB7	Halocynthia_phage	7.1e-13	41.4
WP_002211563.1\|3269084_3269687_-\|tRNA	tRNA adenosine(34) deaminase TadA	S4VYT2	Pandoravirus	6.5e-05	34.1
WP_002211564.1\|3269757_3270453_-	phosphatidylglycerophosphatase C	NA	NA	NA	NA
WP_002211565.1\|3270679_3271567_-	N-acetylmuramic acid 6-phosphate etherase	NA	NA	NA	NA
WP_002211566.1\|3271774_3272614_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA
WP_002211567.1\|3272775_3273036_+	YfhL family 4Fe-4S dicluster ferredoxin	A0A1B1IWY9	uncultured_Mediterranean_phage	9.3e-17	53.5
WP_002213775.1\|3273191_3273650_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002211568.1\|3273851_3274232_-	holo-ACP synthase	NA	NA	NA	NA
WP_002211569.1\|3274231_3274963_-	pyridoxine 5'-phosphate synthase	NA	NA	NA	NA
WP_001297096.1\|3275152_3275932_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|3275931_3276954_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002211571.1\|3277632_3278982_-\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_002211572.1\|3278985_3279525_-	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA
WP_002211573.1\|3279798_3280284_-	type VI secretion system tube protein Hcp	NA	NA	NA	NA
WP_002211574.1\|3280609_3282112_-	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_002211575.1\|3282135_3282660_-	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_002211576.1\|3282764_3283373_-	type 1 fimbrial protein	NA	NA	NA	NA
WP_002211577.1\|3283357_3284548_-	fimbrial biogenesis outer membrane usher protein	NA	NA	NA	NA
WP_002209743.1\|3284572_3285781_+\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	5.4e-51	50.8

DBSCAN-SWA_17

3947245 : 3999872

Escherichia_phage(17.65%)

transposase,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002213775.1\|3947245_3947704_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210156.1\|3947899_3948352_-	50S ribosomal protein L9	NA	NA	NA	NA
WP_002210155.1\|3948391_3948619_-	30S ribosomal protein S18	NA	NA	NA	NA
WP_002210154.1\|3948623_3948944_-	primosomal replication protein N	NA	NA	NA	NA
WP_002210153.1\|3948949_3949342_-	30S ribosomal protein S6	NA	NA	NA	NA
WP_002210152.1\|3949708_3950410_-	esterase	NA	NA	NA	NA
WP_000255944.1\|3950466_3951489_+\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_001297096.1\|3951488_3952268_+	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_002210151.1\|3953348_3954242_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002210150.1\|3954503_3955208_+	pirin family protein	NA	NA	NA	NA
WP_002210149.1\|3956144_3957044_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	1.0e-49	44.4
WP_002228200.1\|3957106_3959080_+	penicillin-binding protein activator	NA	NA	NA	NA
WP_002210147.1\|3959163_3959517_+	YraN family protein	NA	NA	NA	NA
WP_002210146.1\|3959787_3960378_+	DnaA initiator-associating protein DiaA	A0A067XQR2	Caulobacter_phage	3.2e-12	32.0
WP_002210145.1\|3960388_3960964_+	divisome-associated lipoprotein YraP	NA	NA	NA	NA
WP_002210144.1\|3961170_3961896_-	monofunctional biosynthetic peptidoglycan transglycosylase	NA	NA	NA	NA
WP_002210143.1\|3961892_3962546_-	isoprenoid biosynthesis glyoxalase ElbB	NA	NA	NA	NA
WP_002210142.1\|3962787_3965124_-	aerobic respiration two-component sensor histidine kinase ArcB	A0A1V0SGX0	Hokovirus	9.9e-41	30.4
WP_002210140.1\|3965387_3966311_-	TIGR01212 family radical SAM protein	NA	NA	NA	NA
WP_002229651.1\|3967133_3971600_+	glutamate synthase large subunit	NA	NA	NA	NA
WP_002210138.1\|3971609_3973028_+	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_002210137.1\|3973468_3973954_+	hypothetical protein	NA	NA	NA	NA
WP_002216203.1\|3974106_3974622_-\|protease	ClpXP protease specificity-enhancing factor	A0A1S5R3H3	Pseudomonas_phage	3.6e-28	55.6
WP_002210135.1\|3974627_3975269_-	stringent starvation protein A	NA	NA	NA	NA
WP_002230558.1\|3975448_3975646_+	hypothetical protein	NA	NA	NA	NA
WP_002210133.1\|3975642_3976035_-	30S ribosomal protein S9	NA	NA	NA	NA
WP_002210132.1\|3976049_3976478_-	50S ribosomal protein L13	NA	NA	NA	NA
WP_002210131.1\|3976791_3977919_-	cell division protein ZapE	NA	NA	NA	NA
WP_002210130.1\|3978142_3978547_+	DUF1043 family protein	NA	NA	NA	NA
WP_002218066.1\|3978817_3980191_+\|protease	serine endoprotease DegQ	A0A1B1IT49	uncultured_Mediterranean_phage	7.4e-20	28.2
WP_002213775.1\|3980307_3980766_-\|transposase	IS200/IS605-like element IS1541B family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210128.1\|3980991_3982080_+	outer membrane-stress sensor serine endopeptidase DegS	A0A1B1IRD3	uncultured_Mediterranean_phage	2.1e-09	31.8
WP_002210127.1\|3982260_3983523_-	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	NA	NA	NA	NA
WP_002210126.1\|3983676_3983931_-	BolA family iron metabolism protein IbaG	NA	NA	NA	NA
WP_002210125.1\|3984077_3984380_-	lipid asymmetry maintenance protein MlaB	NA	NA	NA	NA
WP_002210124.1\|3984415_3985039_-	phospholipid-binding protein MlaC	NA	NA	NA	NA
WP_002210123.1\|3985051_3985609_-	outer membrane lipid asymmetry maintenance protein MlaD	NA	NA	NA	NA
WP_002210122.1\|3985613_3986396_-	lipid asymmetry maintenance ABC transporter permease subunit MlaE	NA	NA	NA	NA
WP_002210121.1\|3986613_3987432_-	phospholipid ABC transporter ATP-binding protein MlaF	G3M9Y6	Bacillus_virus	2.2e-19	31.7
WP_002210120.1\|3987696_3988671_+	calcium/sodium antiporter	NA	NA	NA	NA
WP_002210119.1\|3988781_3989768_+	arabinose-5-phosphate isomerase KdsD	A0A2P0VNK5	Tetraselmis_virus	6.0e-40	30.8
WP_002228203.1\|3990016_3990580_+	3-deoxy-manno-octulosonate-8-phosphatase KdsC	A0A140XBD6	Dickeya_phage	9.6e-59	83.0
WP_002218352.1\|3990576_3991140_+	LPS export ABC transporter periplasmic protein LptC	NA	NA	NA	NA
WP_002210117.1\|3991123_3991669_+	lipopolysaccharide ABC transporter substrate-binding protein LptA	NA	NA	NA	NA
WP_002210116.1\|3991675_3992401_+	LPS export ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	1.4e-22	28.4
WP_002210115.1\|3992462_3993896_+	RNA polymerase factor sigma-54	NA	NA	NA	NA
WP_002213952.1\|3994324_3994807_+	PTS IIA-like nitrogen regulatory protein PtsN	NA	NA	NA	NA
WP_002210113.1\|3995112_3995967_+	RNase adapter RapZ	A0A0R8VB27	Thermobifida_phage	3.2e-05	30.0
WP_002210112.1\|3995963_3996236_+	PTS phosphocarrier protein NPr	NA	NA	NA	NA
WP_002210111.1\|3996573_3997509_+	aspartate carbamoyltransferase	M1HWF9	Paramecium_bursaria_Chlorella_virus	1.5e-48	38.5
WP_002210110.1\|3997520_3997985_+	aspartate carbamoyltransferase regulatory subunit	NA	NA	NA	NA
WP_002210109.1\|3998122_3998509_+	2-iminobutanoate/2-iminopropanoate deaminase	NA	NA	NA	NA
WP_000255944.1\|3998849_3999872_+\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0

DBSCAN-SWA_18

4064441 : 4139423

Morganella_phage(22.22%)

holin,protease,tRNA,plate,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002213759.1\|4064441_4064900_+\|transposase	IS200/IS605-like element IS1541A family transposase	A0A1S5RHE3	Helicobacter_phage	1.5e-09	33.0
WP_002210052.1\|4065082_4065295_-	RNA chaperone/antiterminator CspA	A0A1W6JNX5	Morganella_phage	9.9e-25	78.6
WP_002210053.1\|4065554_4065767_-	cold-shock protein	A0A1W6JNX5	Morganella_phage	4.4e-25	80.0
WP_002210054.1\|4066299_4066767_-	glycine zipper 2TM domain-containing protein	NA	NA	NA	NA
WP_002210055.1\|4067242_4068055_+	N-acyl homoserine lactonase family protein	NA	NA	NA	NA
WP_002210056.1\|4068119_4069010_+	NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_002217470.1\|4069187_4069583_+	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA
WP_002210058.1\|4069736_4071101_+	MFS transporter	Q6JIH2	Burkholderia_virus	1.0e-13	25.8
WP_002210059.1\|4071190_4071853_+	GntR family transcriptional regulator	NA	NA	NA	NA
WP_002210060.1\|4071918_4072395_+	hypothetical protein	NA	NA	NA	NA
WP_002210061.1\|4073148_4073445_-	DNA-binding transcriptional regulator Fis	NA	NA	NA	NA
WP_002210062.1\|4073469_4074435_-\|tRNA	tRNA dihydrouridine synthase DusB	NA	NA	NA	NA
WP_002220963.1\|4075023_4075905_-	50S ribosomal protein L11 methyltransferase	NA	NA	NA	NA
WP_002210065.1\|4075980_4077435_-	sodium/panthothenate symporter	NA	NA	NA	NA
WP_002210066.1\|4077424_4077667_-	YhdT family protein	NA	NA	NA	NA
WP_162828711.1\|4078602_4078779_+	hypothetical protein	NA	NA	NA	NA
WP_002210069.1\|4079024_4080374_-	acetyl-CoA carboxylase biotin carboxylase subunit	NA	NA	NA	NA
WP_002210070.1\|4080385_4080850_-	acetyl-CoA carboxylase biotin carboxyl carrier protein	NA	NA	NA	NA
WP_002210071.1\|4081007_4081460_-	type II 3-dehydroquinate dehydratase	NA	NA	NA	NA
WP_002210072.1\|4081722_4082343_-	protein-methionine-sulfoxide reductase heme-binding subunit MsrQ	NA	NA	NA	NA
WP_002210073.1\|4082342_4083443_-	protein-methionine-sulfoxide reductase catalytic subunit MsrP	NA	NA	NA	NA
WP_002210074.1\|4083665_4084643_-	oxidoreductase	NA	NA	NA	NA
WP_002210075.1\|4085043_4086960_+	RNase E specificity factor CsrD	NA	NA	NA	NA
WP_002228205.1\|4087296_4088340_+	rod shape-determining protein MreB	F2Y0P3	Organic_Lake_phycodnavirus	6.0e-06	22.3
WP_002210076.1\|4088543_4089539_+	rod shape-determining protein MreC	NA	NA	NA	NA
WP_002210077.1\|4089535_4090024_+	rod shape-determining protein MreD	NA	NA	NA	NA
WP_002210078.1\|4090037_4090631_+	septum formation inhibitor Maf	NA	NA	NA	NA
WP_002210079.1\|4090620_4092090_+	ribonuclease G	NA	NA	NA	NA
WP_002210080.1\|4092183_4096107_+	AsmA2 domain-containing protein YhdP	NA	NA	NA	NA
WP_002210081.1\|4096103_4096973_+	carbon-nitrogen hydrolase family protein	NA	NA	NA	NA
WP_002210082.1\|4096984_4098430_+\|protease	metalloprotease TldD	NA	NA	NA	NA
WP_002210083.1\|4098632_4101491_-	RHS repeat protein	NA	NA	NA	NA
WP_002210084.1\|4101515_4104347_-	RHS repeat protein	NA	NA	NA	NA
WP_002210086.1\|4104547_4104907_-	DUF2570 domain-containing protein	NA	NA	NA	NA
WP_002210087.1\|4104903_4105305_-	M15 family metallopeptidase	A0A249XWK9	Proteus_phage	3.6e-36	61.0
WP_002214300.1\|4105317_4105620_-\|holin	phage holin family protein	NA	NA	NA	NA
WP_002210089.1\|4105753_4110244_-	toxin	NA	NA	NA	NA
WP_002229661.1\|4110300_4112442_-	hypothetical protein	NA	NA	NA	NA
WP_002229660.1\|4112510_4113893_-	hypothetical protein	NA	NA	NA	NA
WP_002210090.1\|4113933_4116435_-	toxin	NA	NA	NA	NA
WP_002214297.1\|4116670_4117537_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_002210092.1\|4117797_4118709_-	HTH-type transcriptional activator AaeR	NA	NA	NA	NA
WP_002210093.1\|4119011_4119215_+	AaeX family protein	NA	NA	NA	NA
WP_002210094.1\|4119222_4120158_+	p-hydroxybenzoic acid efflux pump subunit AaeA	NA	NA	NA	NA
WP_002210095.1\|4120159_4122115_+	p-hydroxybenzoic acid efflux pump subunit AaeB	NA	NA	NA	NA
WP_002214288.1\|4124044_4124518_+	ribonuclease Ba	NA	NA	NA	NA
WP_002210098.1\|4124522_4124804_+	ribonuclease inhibitor	NA	NA	NA	NA
WP_002210099.1\|4124915_4125464_-	ribosome-associated protein	NA	NA	NA	NA
WP_002210100.1\|4125644_4126985_+\|protease	metalloprotease PmbA	NA	NA	NA	NA
WP_011055205.1\|4127233_4127878_+	hypothetical protein	A0A1B0VBK8	Salmonella_phage	3.4e-52	49.0
WP_002210102.1\|4128085_4128472_+	cytochrome b562	NA	NA	NA	NA
WP_002210103.1\|4128695_4129106_-	nucleoside diphosphate kinase regulator	NA	NA	NA	NA
WP_002210104.1\|4129458_4131126_-	alpha,alpha-phosphotrehalase	NA	NA	NA	NA
WP_002215779.1\|4131220_4132636_-	PTS trehalose transporter subunit IIBC	NA	NA	NA	NA
WP_002210106.1\|4133046_4134000_-	HTH-type transcriptional regulator TreR	NA	NA	NA	NA
WP_002210107.1\|4134233_4134710_-	PliI family lysozyme inhibitor of I-type lysozyme	NA	NA	NA	NA
WP_001297096.1\|4134825_4135605_-	AAA family ATPase	A0A2L1IVB6	Escherichia_phage	4.5e-139	99.6
WP_000255944.1\|4135604_4136627_-\|transposase	IS21-like element IS100 family transposase	A0A2L1IVA1	Escherichia_phage	1.9e-201	100.0
WP_002212100.1\|4138982_4139423_-\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr_ID: NC_003143.1|WP_002214494.1|2409021_2409378_+|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

NC_003143.1|WP_002214494.1|2409021_2409378_+|hypothetical-protein

2409021_2409378_+

118 aa aa

2352408-2452065

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location
NC_003143_3	TypeI-F	3.7\|2769682\|32\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769682-2769713	32	2374731-2374762
NC_003143_3	TypeI-F	3.8\|2769742\|33\|NC_003143\|CRISPRCasFinder,CRT,PILER-CR	2769742-2769774	33	2380643-2380611
NC_003143_4	Orphan	4.1\|2895311\|33\|NC_003143\|PILER-CR,CRISPRCasFinder,CRT	2895311-2895343	33	2382983-2383015
NC_003143_4	Orphan	4.5\|2895554\|32\|NC_003143\|CRISPRCasFinder,CRT	2895554-2895585	32	2380297-2380328

1. spacer 3.7|2769682|32|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_003143 position: 2374731-2374762, mismatch: 0

aaaaagaatttgggattaaagttacccatcag	CRISPR spacer
aaaaagaatttgggattaaagttacccatcag	Protospacer
********************************

2. spacer 3.8|2769742|33|NC_003143|CRISPRCasFinder,CRT,PILER-CR matches to NC_003143 position: 2380643-2380611, mismatch: 0

tcaatgcctgaatctctggcgtgatagctgcgg	CRISPR spacer
tcaatgcctgaatctctggcgtgatagctgcgg	Protospacer
*********************************

3. spacer 4.1|2895311|33|NC_003143|PILER-CR,CRISPRCasFinder,CRT matches to NC_003143 position: 2382983-2383015, mismatch: 0

ccggcggtgatggcaattctacgtgggttcgtt	CRISPR spacer
ccggcggtgatggcaattctacgtgggttcgtt	Protospacer
*********************************

4. spacer 4.5|2895554|32|NC_003143|CRISPRCasFinder,CRT matches to NC_003143 position: 2380297-2380328, mismatch: 0

agactgatgcaagatggcggtatgcgtacaga	CRISPR spacer
agactgatgcaagatggcggtatgcgtacaga	Protospacer
********************************

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_003134

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_003131

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

3. NC_003143

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

Click the colored protein region to show detailed information