assembly_id	genome_id	genome_def	crispr_array_locus_merge	crispr_array_location_merge	crispr_locus_id	crispr_pred_method	array_in_prot	prot_within_array_20000	prot_in_genome	crispr_type_by_cas_prot	consensus_repeat	repeat_length	self-targeting_spacer_number	self-targeting_target_number	spacer_location	protospacer_location	repeat_type	spacer_locus_num	spacer_num	correct_crispr_type	genome_cas_prots	unknown_protein_around_crispr	L10	L10_domain	L9	L9_domain	L8	L8_domain	L7	L7_domain	L6	L6_domain	L5	L5_domain	L4	L4_domain	L3	L3_domain	L2	L2_domain	L1	L1_domain	R1	R1_domain	R2	R2_domain	R3	R3_domain	R4	R4_domain	R5	R5_domain	R6	R6_domain	R7	R7_domain	R8	R8_domain	R9	R9_domain	R10	R10_domain
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	1	489905-490005	1	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|70aa|up_8|NZ_CP012011.1_481477_481687_-,NA|128aa|up_6|NZ_CP012011.1_482511_482895_-,NA|34aa|up_0|NZ_CP012011.1_489129_489231_+,NA|221aa|down_1|NZ_CP012011.1_491095_491758_-	NA|84aa|up_9|NZ_CP012011.1_481187_481439_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NZ_CP012011.1_481477_481687_-	NA	NA|194aa|up_7|NZ_CP012011.1_481864_482446_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NZ_CP012011.1_482511_482895_-	NA	NA|209aa|up_5|NZ_CP012011.1_483149_483776_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NZ_CP012011.1_484220_485744_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NZ_CP012011.1_485759_486329_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NZ_CP012011.1_486820_487576_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NZ_CP012011.1_487656_489045_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NZ_CP012011.1_489129_489231_+	NA	NA|319aa|down_0|NZ_CP012011.1_490021_490978_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NZ_CP012011.1_491095_491758_-	NA	NA|136aa|down_2|NZ_CP012011.1_491900_492308_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NZ_CP012011.1_492820_493399_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NZ_CP012011.1_493398_494667_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NZ_CP012011.1_494704_496171_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NZ_CP012011.1_496195_497737_+	PRK00074, guaA, GMP synthase; Reviewed	NA|398aa|down_7|NZ_CP012011.1_497804_498998_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|67aa|down_8|NZ_CP012011.1_499024_499225_-	pfam11372, DUF3173, Domain of unknown function (DUF3173)	NA|77aa|down_9|NZ_CP012011.1_499722_499953_-	pfam12645, HTH_16, Helix-turn-helix domain
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	2	756104-756196	2	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|36aa|up_3|NZ_CP012011.1_752587_752695_+,NA|169aa|down_4|NZ_CP012011.1_759943_760450_+,NA|239aa|down_5|NZ_CP012011.1_760611_761328_+	NA|313aa|up_9|NZ_CP012011.1_746789_747728_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NZ_CP012011.1_747938_748475_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NZ_CP012011.1_748643_749120_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NZ_CP012011.1_749159_750455_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NZ_CP012011.1_750482_751004_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NZ_CP012011.1_751502_752513_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NZ_CP012011.1_752587_752695_+	NA	NA|139aa|up_2|NZ_CP012011.1_752787_753204_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NZ_CP012011.1_753200_754862_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NZ_CP012011.1_755250_755886_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NZ_CP012011.1_756264_757152_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NZ_CP012011.1_757299_758250_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NZ_CP012011.1_758304_759024_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NZ_CP012011.1_759007_759808_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NZ_CP012011.1_759943_760450_+	NA	NA|239aa|down_5|NZ_CP012011.1_760611_761328_+	NA	NA|263aa|down_6|NZ_CP012011.1_761496_762285_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NZ_CP012011.1_762535_762910_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NZ_CP012011.1_763857_764787_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NZ_CP012011.1_764981_765206_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	3	875026-875108	3	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|69aa|up_9|NZ_CP012011.1_861626_861833_+,NA|34aa|down_1|NZ_CP012011.1_876564_876666_+,NA|52aa|down_8|NZ_CP012011.1_884845_885001_+	NA|69aa|up_9|NZ_CP012011.1_861626_861833_+	NA	NA|237aa|up_8|NZ_CP012011.1_861920_862631_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NZ_CP012011.1_862614_863619_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NZ_CP012011.1_864092_866033_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NZ_CP012011.1_866303_868187_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NZ_CP012011.1_868198_869980_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NZ_CP012011.1_870201_871179_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NZ_CP012011.1_871171_872686_+	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|353aa|up_1|NZ_CP012011.1_872925_873984_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NZ_CP012011.1_874334_874877_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NZ_CP012011.1_875556_876474_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NZ_CP012011.1_876564_876666_+	NA	NA|502aa|down_2|NZ_CP012011.1_876743_878249_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_3|NZ_CP012011.1_878589_879090_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_4|NZ_CP012011.1_879109_879976_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|133aa|down_5|NZ_CP012011.1_880776_881175_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_6|NZ_CP012011.1_881137_883243_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_7|NZ_CP012011.1_883360_884332_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|52aa|down_8|NZ_CP012011.1_884845_885001_+	NA	NA|324aa|down_9|NZ_CP012011.1_885039_886011_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	4	916078-916158	4	CRISPRCasFinder	no	cas3	csa3,DEDDh,WYL,cas3,DinG	Unclear	TTCTTTATGTTGGGGCCCCGCCAACT	26	1	10	916104-916132|916104-916132|916104-916132|916104-916132|916104-916132|916104-916132|916104-916132|916104-916132|916104-916132|916104-916132	NZ_CP012011.1_436319-436291|NZ_CP012011.1_436374-436346|NZ_CP012011.1_2011608-2011580|NZ_CP012011.1_316786-316758|NZ_CP012011.1_967417-967445|NZ_CP012011.1_1050111-1050139|NZ_CP012011.1_1294441-1294413|NZ_CP012011.1_1822884-1822912|NZ_CP012011.1_2182460-2182488|NZ_CP012011.1_2735541-2735513	NA	1	1	Unclear	csa3,DEDDh,WYL,cas3,DinG	NA|35aa|up_7|NZ_CP012011.1_906991_907096_+,NA|36aa|up_5|NZ_CP012011.1_908528_908636_+,NA	NA|191aa|up_9|NZ_CP012011.1_903432_904005_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_8|NZ_CP012011.1_904418_906950_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_7|NZ_CP012011.1_906991_907096_+	NA	NA|370aa|up_6|NZ_CP012011.1_907264_908375_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|36aa|up_5|NZ_CP012011.1_908528_908636_+	NA	NA|280aa|up_4|NZ_CP012011.1_908783_909623_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NZ_CP012011.1_909796_910447_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NZ_CP012011.1_910443_910680_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NZ_CP012011.1_910948_912934_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NZ_CP012011.1_912941_915788_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NZ_CP012011.1_916394_917327_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NZ_CP012011.1_917332_918172_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NZ_CP012011.1_918179_918665_+	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins	NA|480aa|down_3|NZ_CP012011.1_918672_920112_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|NZ_CP012011.1_920178_921114_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|NZ_CP012011.1_921995_922907_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|NZ_CP012011.1_922903_923899_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|196aa|down_7|NZ_CP012011.1_925524_926112_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_8|NZ_CP012011.1_926354_927257_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_9|NZ_CP012011.1_927959_928589_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	5	967351-967432	5	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	967375-967408|967375-967408	NZ_CP012011.1_1505336-1505303|NZ_CP012011.1_1597897-1597930	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA,NA|52aa|down_9|NZ_CP012011.1_975509_975665_+	NA|194aa|up_9|NZ_CP012011.1_960454_961036_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NZ_CP012011.1_961108_961726_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NZ_CP012011.1_961880_962375_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NZ_CP012011.1_962773_963196_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NZ_CP012011.1_963343_964060_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NZ_CP012011.1_964142_964682_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NZ_CP012011.1_964831_965152_-	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|119aa|up_2|NZ_CP012011.1_965295_965652_+	cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC	NA|127aa|up_1|NZ_CP012011.1_965809_966190_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NZ_CP012011.1_966368_967247_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_CP012011.1_967988_968375_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_CP012011.1_968367_968664_+	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|342aa|down_2|NZ_CP012011.1_968913_969939_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NZ_CP012011.1_969931_970627_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NZ_CP012011.1_970644_971466_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|463aa|down_5|NZ_CP012011.1_972844_974233_-	pfam02037, SAP, SAP domain	NA|191aa|down_6|NZ_CP012011.1_974259_974832_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|74aa|down_7|NZ_CP012011.1_975003_975225_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|91aa|down_8|NZ_CP012011.1_975225_975498_+	pfam13545, HTH_Crp_2, Crp-like helix-turn-helix domain	NA|52aa|down_9|NZ_CP012011.1_975509_975665_+	NA
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	6	1166535-1166622	6	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	CCCCTAACAACTAAAAGTTGTAAGG	25	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA,NA|45aa|down_0|NZ_CP012011.1_1166631_1166766_-,NA|432aa|down_1|NZ_CP012011.1_1166917_1168213_+	NA|224aa|up_9|NZ_CP012011.1_1154325_1154997_+	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ	NA|730aa|up_8|NZ_CP012011.1_1154989_1157179_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_7|NZ_CP012011.1_1157157_1158642_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_6|NZ_CP012011.1_1158634_1159663_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_5|NZ_CP012011.1_1159665_1160232_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_4|NZ_CP012011.1_1160246_1161725_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_3|NZ_CP012011.1_1161746_1162994_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_2|NZ_CP012011.1_1163258_1164065_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_1|NZ_CP012011.1_1164057_1165458_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_0|NZ_CP012011.1_1165472_1166048_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|45aa|down_0|NZ_CP012011.1_1166631_1166766_-	NA	NA|432aa|down_1|NZ_CP012011.1_1166917_1168213_+	NA	NA|391aa|down_2|NZ_CP012011.1_1168637_1169810_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|NZ_CP012011.1_1169863_1170406_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|NZ_CP012011.1_1170559_1170826_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|NZ_CP012011.1_1170828_1172547_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|NZ_CP012011.1_1172783_1173017_-	cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile	NA|454aa|down_7|NZ_CP012011.1_1173214_1174576_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|NZ_CP012011.1_1174572_1175592_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|NZ_CP012011.1_1175724_1176387_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	7	1294475-1294560	7	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	AAAGTCAGCTTACAATAATGTGCAAGTTGG	30	1	5	1294505-1294530|1294505-1294530|1294505-1294530|1294505-1294530|1294505-1294530	NZ_CP012011.1_316626-316651|NZ_CP012011.1_884554-884579|NZ_CP012011.1_921531-921506|NZ_CP012011.1_884498-884523|NZ_CP012011.1_884610-884635	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|31aa|up_9|NZ_CP012011.1_1287045_1287138_-,NA|169aa|up_7|NZ_CP012011.1_1288170_1288677_+,NA|62aa|up_4|NZ_CP012011.1_1290758_1290944_-,NA|78aa|up_3|NZ_CP012011.1_1291565_1291799_-,NA|49aa|up_1|NZ_CP012011.1_1293907_1294054_+,NA|75aa|up_0|NZ_CP012011.1_1294010_1294235_+,NA|76aa|down_6|NZ_CP012011.1_1301534_1301762_+	NA|31aa|up_9|NZ_CP012011.1_1287045_1287138_-	NA	NA|134aa|up_8|NZ_CP012011.1_1287097_1287499_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|NZ_CP012011.1_1288170_1288677_+	NA	NA|166aa|up_6|NZ_CP012011.1_1288935_1289433_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|NZ_CP012011.1_1289586_1289937_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|NZ_CP012011.1_1290758_1290944_-	NA	NA|78aa|up_3|NZ_CP012011.1_1291565_1291799_-	NA	NA|320aa|up_2|NZ_CP012011.1_1292275_1293235_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|NZ_CP012011.1_1293907_1294054_+	NA	NA|75aa|up_0|NZ_CP012011.1_1294010_1294235_+	NA	NA|239aa|down_0|NZ_CP012011.1_1294735_1295452_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|NZ_CP012011.1_1295559_1296285_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|NZ_CP012011.1_1296379_1297105_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|NZ_CP012011.1_1297542_1298544_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|311aa|down_4|NZ_CP012011.1_1298566_1299499_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|NZ_CP012011.1_1299670_1301227_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|NZ_CP012011.1_1301534_1301762_+	NA	NA|316aa|down_7|NZ_CP012011.1_1302066_1303014_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|NZ_CP012011.1_1303262_1303451_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|NZ_CP012011.1_1304362_1304497_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	8	2171739-2171817	8	CRISPRCasFinder	no	DEDDh	csa3,DEDDh,WYL,cas3,DinG	Unclear	AATTTCTCTATGTTGGGGCCCCG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|92aa|up_6|NZ_CP012011.1_2165943_2166219_+,NA|129aa|up_1|NZ_CP012011.1_2170204_2170591_-,NA|138aa|down_1|NZ_CP012011.1_2173454_2173868_-,NA|37aa|down_2|NZ_CP012011.1_2173896_2174007_-,NA|31aa|down_6|NZ_CP012011.1_2177012_2177105_-	NA|77aa|up_9|NZ_CP012011.1_2163793_2164024_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|391aa|up_8|NZ_CP012011.1_2164026_2165199_-	pfam00872, Transposase_mut, Transposase, Mutator family	NA|155aa|up_7|NZ_CP012011.1_2165472_2165937_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NZ_CP012011.1_2165943_2166219_+	NA	NA|406aa|up_5|NZ_CP012011.1_2166496_2167714_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NZ_CP012011.1_2167829_2168459_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|NZ_CP012011.1_2168448_2169492_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NZ_CP012011.1_2169488_2170190_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NZ_CP012011.1_2170204_2170591_-	NA	NA|253aa|up_0|NZ_CP012011.1_2170807_2171566_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NZ_CP012011.1_2172037_2173024_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NZ_CP012011.1_2173454_2173868_-	NA	NA|37aa|down_2|NZ_CP012011.1_2173896_2174007_-	NA	NA|244aa|down_3|NZ_CP012011.1_2174092_2174824_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NZ_CP012011.1_2174825_2176139_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NZ_CP012011.1_2176430_2176931_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NZ_CP012011.1_2177012_2177105_-	NA	DEDDh|185aa|down_7|NZ_CP012011.1_2177319_2177874_+	cd06130, DNA_pol_III_epsilon_like, an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III	NA|357aa|down_8|NZ_CP012011.1_2177941_2179012_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NZ_CP012011.1_2179258_2179789_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	9	2414766-2414916	9	CRISPRCasFinder	no	csa3	csa3,DEDDh,WYL,cas3,DinG	Type I-A	AACTTTAGTTGTTAGGGGCTCTTATGCA	28	0	0	NA	NA	NA	2	2	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|77aa|up_5|NZ_CP012011.1_2409637_2409868_-,NA|364aa|up_0|NZ_CP012011.1_2413656_2414748_+,NA|35aa|down_0|NZ_CP012011.1_2415247_2415352_-,NA|31aa|down_2|NZ_CP012011.1_2417463_2417556_+	NA|237aa|up_9|NZ_CP012011.1_2405247_2405958_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP012011.1_2406078_2406522_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP012011.1_2406721_2407135_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP012011.1_2407592_2408966_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP012011.1_2409637_2409868_-	NA	NA|313aa|up_4|NZ_CP012011.1_2409898_2410837_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP012011.1_2411271_2411937_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP012011.1_2412088_2412409_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_CP012011.1_2412410_2413391_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP012011.1_2413656_2414748_+	NA	NA|35aa|down_0|NZ_CP012011.1_2415247_2415352_-	NA	NA|379aa|down_1|NZ_CP012011.1_2416038_2417175_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NZ_CP012011.1_2417463_2417556_+	NA	NA|286aa|down_3|NZ_CP012011.1_2418260_2419118_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NZ_CP012011.1_2419185_2419968_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NZ_CP012011.1_2420199_2422005_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NZ_CP012011.1_2422685_2424224_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NZ_CP012011.1_2424258_2426391_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NZ_CP012011.1_2426402_2426837_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NZ_CP012011.1_2426836_2427943_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	10	2538928-2539121	1	CRT	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	13	2538951-2538983|2538951-2538983|2538951-2538983|2538951-2538983|2539007-2539042|2539007-2539042|2539007-2539042|2539007-2539042|2539007-2539042|2539066-2539098|2539066-2539098|2539066-2539098|2539066-2539098	NZ_CP012011.1_1294494-1294462|NZ_CP012011.1_1505290-1505258|NZ_CP012011.1_1597943-1597975|NZ_CP012011.1_2816292-2816324|NZ_CP012011.1_1294441-1294406|NZ_CP012011.1_2011608-2011573|NZ_CP012011.1_316786-316751|NZ_CP012011.1_1822884-1822919|NZ_CP012011.1_2182460-2182495|NZ_CP012011.1_921486-921518|NZ_CP012011.1_1294494-1294462|NZ_CP012011.1_1505290-1505258|NZ_CP012011.1_2816292-2816324	NA	3	3	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|55aa|up_9|NZ_CP012011.1_2529455_2529620_+,NA|106aa|up_8|NZ_CP012011.1_2529864_2530182_+,NA|84aa|up_5|NZ_CP012011.1_2535306_2535558_+,NA|57aa|up_0|NZ_CP012011.1_2538697_2538868_+,NA	NA|55aa|up_9|NZ_CP012011.1_2529455_2529620_+	NA	NA|106aa|up_8|NZ_CP012011.1_2529864_2530182_+	NA	NA|1056aa|up_7|NZ_CP012011.1_2530368_2533536_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP012011.1_2533652_2534918_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP012011.1_2535306_2535558_+	NA	NA|255aa|up_4|NZ_CP012011.1_2535549_2536314_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP012011.1_2536475_2536916_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_CP012011.1_2536908_2538120_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP012011.1_2538221_2538572_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NZ_CP012011.1_2538697_2538868_+	NA	NA|341aa|down_0|NZ_CP012011.1_2539262_2540285_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_CP012011.1_2540304_2540904_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_CP012011.1_2540910_2541144_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_CP012011.1_2541149_2541596_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_CP012011.1_2541609_2542095_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_CP012011.1_2542091_2543351_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_CP012011.1_2543413_2543908_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_CP012011.1_2543909_2544416_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_CP012011.1_2544446_2545451_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_CP012011.1_2545620_2546226_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
GCF_001515745.1_ASM151574v1	NZ_CP012011	Staphylococcus aureus subsp. aureus strain HC1340 chromosome, complete genome	11	3040351-3040434	10	CRISPRCasFinder	no		csa3,DEDDh,WYL,cas3,DinG	Orphan	TTTCGAAATTCTCTGTGTTGGGACCC	26	1	5	3040377-3040408|3040377-3040408|3040377-3040408|3040377-3040408|3040377-3040408	NZ_CP012011.1_921586-921617|NZ_CP012011.1_921644-921675|NZ_CP012011.1_921702-921733|NZ_CP012011.1_1176495-1176526|NZ_CP012011.1_1597987-1598018	NA	1	1	Orphan	csa3,DEDDh,WYL,cas3,DinG	NA|64aa|up_7|NZ_CP012011.1_3034302_3034494_+,NA|166aa|up_6|NZ_CP012011.1_3035580_3036078_-,NA	NA|253aa|up_9|NZ_CP012011.1_3031582_3032341_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|627aa|up_8|NZ_CP012011.1_3032330_3034211_+	pfam02687, FtsX, FtsX-like permease family	NA|64aa|up_7|NZ_CP012011.1_3034302_3034494_+	NA	NA|166aa|up_6|NZ_CP012011.1_3035580_3036078_-	NA	NA|250aa|up_5|NZ_CP012011.1_3036079_3036829_-	pfam15526, Ntox21, Novel toxin 21	NA|268aa|up_4|NZ_CP012011.1_3036847_3037651_-	cd07477, Peptidases_S8_Subtilisin_subset, Peptidase S8 family domain in Subtilisin proteins	NA|67aa|up_3|NZ_CP012011.1_3038134_3038335_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|190aa|up_2|NZ_CP012011.1_3038461_3039031_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|132aa|up_1|NZ_CP012011.1_3039283_3039679_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|118aa|up_0|NZ_CP012011.1_3039746_3040100_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|280aa|down_0|NZ_CP012011.1_3040652_3041492_-	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|240aa|down_1|NZ_CP012011.1_3041534_3042254_-	PRK00107, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA|626aa|down_2|NZ_CP012011.1_3042253_3044131_-	PRK05192, PRK05192, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	NA|460aa|down_3|NZ_CP012011.1_3044197_3045577_-	PRK05291, trmE, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE	NA|118aa|down_4|NZ_CP012011.1_3045720_3046074_-	PRK00499, rnpA, ribonuclease P; Reviewed	NA|46aa|down_5|NZ_CP012011.1_3046193_3046331_-	pfam00468, Ribosomal_L34, Ribosomal protein L34	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA
