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
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	1	46225-46335	1	CRISPRCasFinder	no	WYL	WYL,cas3,DEDDh,DinG,csa3	Unclear	TATAAGGACTTAAATTATAAAACGTCCCT	29	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA,NA|59aa|down_1|CP022906.1_48420_48597_-,NA|93aa|down_3|CP022906.1_49251_49530_-	NA|56aa|up_9|CP022906.1_36738_36906_+	COG3425, PksG, 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]	NA|248aa|up_8|CP022906.1_37742_38486_+	cd08562, GDPD_EcUgpQ_like, Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins	NA|143aa|up_7|CP022906.1_38582_39011_+	cd03454, YdeM, YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function	NA|669aa|up_6|CP022906.1_39056_41063_-	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|329aa|up_5|CP022906.1_41162_42149_+	COG4219, MecR1, Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]	NA|86aa|up_4|CP022906.1_42120_42378_+	pfam11867, DUF3387, Domain of unknown function (DUF3387)	NA|508aa|up_3|CP022906.1_42371_43895_-	pfam13751, DDE_Tnp_1_6, Transposase DDE domain	NA|169aa|up_2|CP022906.1_44030_44537_-	COG4333, COG4333, Uncharacterized protein conserved in bacteria [Function unknown]	NA|225aa|up_1|CP022906.1_44756_45431_-	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|248aa|up_0|CP022906.1_45460_46204_-	COG5527, COG5527, Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]	NA|337aa|down_0|CP022906.1_47423_48434_-	pfam03432, Relaxase, Relaxase/Mobilisation nuclease domain	NA|59aa|down_1|CP022906.1_48420_48597_-	NA	NA|130aa|down_2|CP022906.1_48593_48983_-	pfam05713, MobC, Bacterial mobilisation protein (MobC)	NA|93aa|down_3|CP022906.1_49251_49530_-	NA	NA|267aa|down_4|CP022906.1_49626_50427_-	COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]	NA|58aa|down_5|CP022906.1_52267_52441_+	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|225aa|down_6|CP022906.1_52470_53145_+	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	WYL|121aa|down_7|CP022906.1_53186_53549_-	COG2378, COG2378, Predicted transcriptional regulator [Transcription]	NA|265aa|down_8|CP022906.1_53824_54619_-	cd05150, APH, Aminoglycoside 3'-phosphotransferase	NA|181aa|down_9|CP022906.1_54711_55254_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	2	417390-417490	2	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|129aa|up_6|CP022906.1_409996_410383_-,NA|86aa|up_4|CP022906.1_411333_411591_-,NA|221aa|down_1|CP022906.1_418580_419243_-,NA|179aa|down_7|CP022906.1_425334_425871_-	NA|88aa|up_9|CP022906.1_408109_408373_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|84aa|up_8|CP022906.1_408672_408924_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|194aa|up_7|CP022906.1_409349_409931_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|129aa|up_6|CP022906.1_409996_410383_-	NA	NA|209aa|up_5|CP022906.1_410634_411261_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|86aa|up_4|CP022906.1_411333_411591_-	NA	NA|508aa|up_3|CP022906.1_411705_413229_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_2|CP022906.1_413244_413814_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_1|CP022906.1_414305_415061_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_0|CP022906.1_415141_416530_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|319aa|down_0|CP022906.1_417506_418463_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|CP022906.1_418580_419243_-	NA	NA|136aa|down_2|CP022906.1_419385_419793_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|CP022906.1_420305_420884_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|CP022906.1_420883_422152_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|CP022906.1_422189_423656_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|CP022906.1_423680_425222_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|CP022906.1_425334_425871_-	NA	NA|235aa|down_8|CP022906.1_426263_426968_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|CP022906.1_427366_427639_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	3	657919-658011	3	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|36aa|up_3|CP022906.1_654403_654511_+,NA|169aa|down_4|CP022906.1_661758_662265_+,NA|239aa|down_5|CP022906.1_662426_663143_+	NA|313aa|up_9|CP022906.1_648605_649544_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|CP022906.1_649754_650291_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|CP022906.1_650459_650936_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|CP022906.1_650975_652271_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|169aa|up_5|CP022906.1_652313_652820_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|CP022906.1_653318_654329_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|CP022906.1_654403_654511_+	NA	NA|139aa|up_2|CP022906.1_654603_655020_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|CP022906.1_655016_656678_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|CP022906.1_657065_657701_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|CP022906.1_658079_658967_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|329aa|down_1|CP022906.1_659078_660065_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|CP022906.1_660119_660839_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|CP022906.1_660822_661623_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|CP022906.1_661758_662265_+	NA	NA|239aa|down_5|CP022906.1_662426_663143_+	NA	NA|263aa|down_6|CP022906.1_663311_664100_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|CP022906.1_664350_664725_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|CP022906.1_665672_666602_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|CP022906.1_666796_667021_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	4	816310-816390	4	CRISPRCasFinder	no	cas3	WYL,cas3,DEDDh,DinG,csa3	Unclear	TTCTTTATGTTGGGGCCCCGCCAACT	26	1	9	816336-816364|816336-816364|816336-816364|816336-816364|816336-816364|816336-816364|816336-816364|816336-816364|816336-816364	CP022906.1_2848594-2848622|CP022906.1_378885-378857|CP022906.1_378940-378912|CP022906.1_1857017-1856989|CP022906.1_866378-866406|CP022906.1_950770-950798|CP022906.1_1678508-1678536|CP022906.1_2073113-2073141|CP022906.1_2574637-2574609	NA	1	1	Unclear	WYL,cas3,DEDDh,DinG,csa3	NA,NA	cas3|361aa|up_9|CP022906.1_801854_802937_+	COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	NA|225aa|up_8|CP022906.1_802929_803604_+	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|191aa|up_7|CP022906.1_803664_804237_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_6|CP022906.1_804650_807182_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|331aa|up_5|CP022906.1_807614_808607_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|280aa|up_4|CP022906.1_809015_809855_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|CP022906.1_810028_810679_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|CP022906.1_810675_810912_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|CP022906.1_811180_813166_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|CP022906.1_813173_816020_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|CP022906.1_816626_817559_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|CP022906.1_817564_818404_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|CP022906.1_818411_818897_+	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|CP022906.1_818904_820344_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|CP022906.1_820410_821346_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|CP022906.1_822167_823079_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|CP022906.1_823075_824071_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|CP022906.1_824180_825125_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|CP022906.1_825697_826285_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|290aa|down_9|CP022906.1_826527_827397_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	5	821708-821793	5	CRISPRCasFinder	no	cas3	WYL,cas3,DEDDh,DinG,csa3	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	5	821738-821763|821738-821763|821738-821763|821738-821763|821738-821763	CP022906.1_784755-784730|CP022906.1_1151998-1151973|CP022906.1_2848562-2848587|CP022906.1_784811-784786|CP022906.1_931100-931075	NA	1	1	Unclear	WYL,cas3,DEDDh,DinG,csa3	NA,NA	NA|280aa|up_9|CP022906.1_809015_809855_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|CP022906.1_810028_810679_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|CP022906.1_810675_810912_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|CP022906.1_811180_813166_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|CP022906.1_813173_816020_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|CP022906.1_816626_817559_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|CP022906.1_817564_818404_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|CP022906.1_818411_818897_+	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|up_1|CP022906.1_818904_820344_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|CP022906.1_820410_821346_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|CP022906.1_822167_823079_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|CP022906.1_823075_824071_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|CP022906.1_824180_825125_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|CP022906.1_825697_826285_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|290aa|down_4|CP022906.1_826527_827397_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|CP022906.1_828133_828763_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|CP022906.1_829522_830536_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|CP022906.1_830588_831599_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|CP022906.1_831737_832928_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|CP022906.1_833049_833811_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	6	866312-866393	6	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	866336-866369|866336-866369	CP022906.1_1362827-1362794|CP022906.1_1451265-1451298	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|38aa|up_1|CP022906.1_865214_865328_+,NA|150aa|down_7|CP022906.1_872910_873360_-,NA|144aa|down_8|CP022906.1_873429_873861_-	NA|206aa|up_9|CP022906.1_860069_860687_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_8|CP022906.1_860841_861336_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|CP022906.1_861734_862157_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|CP022906.1_862304_863021_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|CP022906.1_863103_863643_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|CP022906.1_863792_864113_-	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_3|CP022906.1_864256_864613_+	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_2|CP022906.1_864770_865151_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|CP022906.1_865214_865328_+	NA	NA|293aa|up_0|CP022906.1_865329_866208_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|130aa|down_0|CP022906.1_866946_867336_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|CP022906.1_867328_867625_+	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|CP022906.1_867874_868900_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|CP022906.1_868892_869588_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|CP022906.1_869605_870427_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|CP022906.1_870569_871790_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|CP022906.1_871878_872607_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|150aa|down_7|CP022906.1_872910_873360_-	NA	NA|144aa|down_8|CP022906.1_873429_873861_-	NA	NA|153aa|down_9|CP022906.1_873877_874336_-	pfam06114, Peptidase_M78, IrrE N-terminal-like domain
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	7	931101-931383	1	CRT	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	6	931131-931156|931131-931156|931131-931156|931131-931156|931245-931270|931245-931270	CP022906.1_931075-931100|CP022906.1_784730-784755|CP022906.1_1151973-1151998|CP022906.1_2848587-2848562|CP022906.1_821819-821794|CP022906.1_378723-378748	NA	4	4	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA,NA	NA|499aa|up_9|CP022906.1_919990_921487_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|CP022906.1_921479_921821_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|CP022906.1_921820_922249_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|CP022906.1_922241_924647_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|CP022906.1_924777_925161_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|CP022906.1_925224_925818_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|CP022906.1_926233_926611_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|CP022906.1_926971_928099_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|CP022906.1_928406_929597_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|CP022906.1_929705_930950_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|CP022906.1_931452_932382_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|CP022906.1_932623_934003_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|CP022906.1_933992_935198_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|CP022906.1_935548_936880_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|CP022906.1_937204_937780_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|CP022906.1_937784_938309_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|CP022906.1_938324_938900_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|CP022906.1_939059_942536_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|CP022906.1_942536_946190_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|CP022906.1_946355_947258_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	8	1151803-1151989	2	CRT	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	GGCGGGGCCCCAACATAGA	19	3	26	1151822-1151858|1151822-1151858|1151822-1151858|1151822-1151858|1151822-1151858|1151822-1151858|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151878-1151914|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970|1151934-1151970	CP022906.1_1856986-1857022|CP022906.1_866409-866373|CP022906.1_1678539-1678503|CP022906.1_2073144-2073108|CP022906.1_2574606-2574642|CP022906.1_2848625-2848589|CP022906.1_378740-378776|CP022906.1_821802-821766|CP022906.1_1051185-1051149|CP022906.1_1362753-1362789|CP022906.1_1451339-1451303|CP022906.1_1678597-1678561|CP022906.1_2664232-2664196|CP022906.1_1147910-1147946|CP022906.1_1151990-1152026|CP022906.1_152877-152913|CP022906.1_656957-656993|CP022906.1_774368-774332|CP022906.1_775302-775338|CP022906.1_821858-821822|CP022906.1_1362811-1362847|CP022906.1_1451281-1451245|CP022906.1_2063854-2063818|CP022906.1_1077319-1077283|CP022906.1_2549359-2549323|CP022906.1_1147966-1148002	NA	3	3	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|169aa|up_7|CP022906.1_1145582_1146089_+,NA|62aa|up_4|CP022906.1_1148170_1148356_-,NA|78aa|up_3|CP022906.1_1148977_1149211_-,NA|49aa|up_1|CP022906.1_1151319_1151466_+,NA|66aa|up_0|CP022906.1_1151449_1151647_+,NA|76aa|down_6|CP022906.1_1159002_1159230_+	NA|110aa|up_9|CP022906.1_1143811_1144141_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|134aa|up_8|CP022906.1_1144509_1144911_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|CP022906.1_1145582_1146089_+	NA	NA|166aa|up_6|CP022906.1_1146347_1146845_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|CP022906.1_1146998_1147349_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|CP022906.1_1148170_1148356_-	NA	NA|78aa|up_3|CP022906.1_1148977_1149211_-	NA	NA|320aa|up_2|CP022906.1_1149687_1150647_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|CP022906.1_1151319_1151466_+	NA	NA|66aa|up_0|CP022906.1_1151449_1151647_+	NA	NA|239aa|down_0|CP022906.1_1152203_1152920_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|CP022906.1_1153027_1153753_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|CP022906.1_1153847_1154573_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|CP022906.1_1155010_1156012_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|312aa|down_4|CP022906.1_1156031_1156967_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|CP022906.1_1157138_1158695_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|CP022906.1_1159002_1159230_+	NA	NA|316aa|down_7|CP022906.1_1159534_1160482_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|CP022906.1_1160730_1160919_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|CP022906.1_1161830_1161965_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	9	1857026-1857252	7	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	GGGCCCCAACACAGAAGCTGGCCAATAGTCAGCTTTCAATAATGTGCAAGTTGG	54	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA,NA	NA|199aa|up_9|CP022906.1_1847580_1848177_-	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|286aa|up_8|CP022906.1_1848205_1849063_-	PRK13668, PRK13668, hypothetical protein; Provisional	NA|104aa|up_7|CP022906.1_1849162_1849474_-	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|359aa|up_6|CP022906.1_1849538_1850615_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|105aa|up_5|CP022906.1_1850698_1851013_+	COG5584, COG5584, Predicted small secreted protein [Function unknown]	NA|281aa|up_4|CP022906.1_1851137_1851980_-	cd07728, YtnP-like_MBL-fold, Bacillus subtilis YtnP and related proteins; MBL-fold metallo hydrolase domain	NA|215aa|up_3|CP022906.1_1852449_1853094_-	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed	NA|264aa|up_2|CP022906.1_1853108_1853900_-	COG0510, ycfN, Thiamine kinase and related kinases [Coenzyme transport and metabolism]	NA|283aa|up_1|CP022906.1_1854450_1855299_-	TIGR01121, D-alanine_aminotransferase, D-amino acid aminotransferase	NA|470aa|up_0|CP022906.1_1855302_1856712_-	PRK07318, PRK07318, dipeptidase PepV; Reviewed	NA|141aa|down_0|CP022906.1_1857631_1858054_-	pfam12732, YtxH, YtxH-like protein	NA|232aa|down_1|CP022906.1_1858070_1858766_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|554aa|down_2|CP022906.1_1858762_1860424_-	cd13124, MATE_SpoVB_like, Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins	NA|423aa|down_3|CP022906.1_1860830_1862099_+	pfam03486, HI0933_like, HI0933-like protein	NA|2187aa|down_4|CP022906.1_1862215_1868776_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|104aa|down_5|CP022906.1_1869101_1869413_-	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein	NA|806aa|down_6|CP022906.1_1869434_1871852_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|394aa|down_7|CP022906.1_1872139_1873321_-	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|318aa|down_8|CP022906.1_1873430_1874384_+	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|188aa|down_9|CP022906.1_1874380_1874944_+	pfam06962, rRNA_methylase, Putative rRNA methylase
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	10	2062346-2062424	8	CRISPRCasFinder	no	DEDDh	WYL,cas3,DEDDh,DinG,csa3	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	5	2062369-2062401|2062369-2062401|2062369-2062401|2062369-2062401|2062369-2062401	CP022906.1_821774-821806|CP022906.1_1362781-1362749|CP022906.1_1678569-1678601|CP022906.1_2664204-2664236|CP022906.1_1451311-1451343	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|92aa|up_6|CP022906.1_2056540_2056816_+,NA|129aa|up_1|CP022906.1_2060801_2061188_-,NA|138aa|down_1|CP022906.1_2064107_2064521_-	NA|416aa|up_9|CP022906.1_2054463_2055711_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|69aa|up_8|CP022906.1_2055722_2055929_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|CP022906.1_2056069_2056534_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|CP022906.1_2056540_2056816_+	NA	NA|406aa|up_5|CP022906.1_2057093_2058311_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|CP022906.1_2058426_2059056_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|CP022906.1_2059045_2060089_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|CP022906.1_2060085_2060787_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|CP022906.1_2060801_2061188_-	NA	NA|253aa|up_0|CP022906.1_2061404_2062163_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|CP022906.1_2062690_2063677_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|CP022906.1_2064107_2064521_-	NA	NA|244aa|down_2|CP022906.1_2064745_2065477_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_3|CP022906.1_2065478_2066792_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_4|CP022906.1_2067083_2067584_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	DEDDh|185aa|down_5|CP022906.1_2067972_2068527_+	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_6|CP022906.1_2068594_2069665_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_7|CP022906.1_2069911_2070442_-	pfam11667, DUF3267, Putative zincin peptidase	NA|454aa|down_8|CP022906.1_2070611_2071973_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|316aa|down_9|CP022906.1_2072053_2073001_-	PRK13337, PRK13337, putative lipid kinase; Reviewed
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	11	2257161-2257241	9	CRISPRCasFinder	no	csa3	WYL,cas3,DEDDh,DinG,csa3	Type I-A	TTACAACTTTAGTTGTTAGGGGCT	24	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|77aa|up_5|CP022906.1_2252036_2252267_-,NA|364aa|up_0|CP022906.1_2256055_2257147_+,NA	NA|237aa|up_9|CP022906.1_2247646_2248357_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|CP022906.1_2248477_2248921_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|CP022906.1_2249120_2249534_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|CP022906.1_2249991_2251365_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|CP022906.1_2252036_2252267_-	NA	NA|313aa|up_4|CP022906.1_2252297_2253236_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|CP022906.1_2253670_2254336_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|CP022906.1_2254487_2254808_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|CP022906.1_2254809_2255790_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|CP022906.1_2256055_2257147_+	NA	NA|68aa|down_0|CP022906.1_2258109_2258313_-	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain	NA|379aa|down_1|CP022906.1_2258371_2259508_-	pfam02037, SAP, SAP domain	NA|286aa|down_2|CP022906.1_2260592_2261450_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|CP022906.1_2261517_2262300_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_4|CP022906.1_2262531_2264337_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_5|CP022906.1_2265017_2266556_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_6|CP022906.1_2266590_2268723_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_7|CP022906.1_2268734_2269169_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_8|CP022906.1_2269168_2270275_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|2479aa|down_9|CP022906.1_2270593_2278030_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain
GCA_003354965.1_ASM335496v1	CP022906	Staphylococcus aureus strain 546 chromosome, complete genome	12	2381259-2381452	3	CRT	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	2	7	2381282-2381314|2381282-2381314|2381282-2381314|2381282-2381314|2381338-2381373|2381338-2381373|2381338-2381373	CP022906.1_821774-821806|CP022906.1_1362781-1362749|CP022906.1_1451311-1451343|CP022906.1_2664204-2664236|CP022906.1_1857017-1856982|CP022906.1_1678508-1678543|CP022906.1_2073113-2073148	NA	3	3	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|55aa|up_8|CP022906.1_2371786_2371951_+,NA|106aa|up_7|CP022906.1_2372195_2372513_+,NA|84aa|up_4|CP022906.1_2377637_2377889_+,NA	NA|303aa|up_9|CP022906.1_2370745_2371654_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|55aa|up_8|CP022906.1_2371786_2371951_+	NA	NA|106aa|up_7|CP022906.1_2372195_2372513_+	NA	NA|1056aa|up_6|CP022906.1_2372699_2375867_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_5|CP022906.1_2375983_2377249_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_4|CP022906.1_2377637_2377889_+	NA	NA|255aa|up_3|CP022906.1_2377880_2378645_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_2|CP022906.1_2378806_2379247_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_1|CP022906.1_2379239_2380451_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_0|CP022906.1_2380552_2380903_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|341aa|down_0|CP022906.1_2381593_2382616_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|CP022906.1_2382635_2383235_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|CP022906.1_2383241_2383475_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|CP022906.1_2383480_2383927_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|CP022906.1_2383940_2384426_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|CP022906.1_2384422_2385682_-	cd00887, MoeA, MoeA family	NA|169aa|down_6|CP022906.1_2386240_2386747_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_7|CP022906.1_2386777_2387782_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_8|CP022906.1_2387951_2388557_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|224aa|down_9|CP022906.1_2388557_2389229_-	COG4149, ModC, ABC-type molybdate transport system, permease component [Inorganic ion transport and metabolism]
