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_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	1	166573-166657	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	3	166599-166631|166599-166631|166599-166631	NZ_CP019574.1_1062395-1062363|NZ_CP019574.1_1435106-1435074|NZ_CP019574.1_1986840-1986808	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|68aa|down_0|NZ_CP019574.1_166718_166922_-	NA|413aa|up_9|NZ_CP019574.1_155653_156892_+	cd13127, MATE_tuaB_like, Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins	NA|402aa|up_8|NZ_CP019574.1_156925_158131_+	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|186aa|up_7|NZ_CP019574.1_158141_158699_+	COG2148, WcaJ, Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]	NA|296aa|up_6|NZ_CP019574.1_158698_159586_+	cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs	NA|421aa|up_5|NZ_CP019574.1_159639_160902_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|382aa|up_4|NZ_CP019574.1_160978_162124_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|109aa|up_3|NZ_CP019574.1_162188_162515_-	PRK13313, PRK13313, staphylobilin-forming heme oxygenase IsdI	NA|128aa|up_2|NZ_CP019574.1_162521_162905_-	pfam04304, DUF454, Protein of unknown function (DUF454)	NA|496aa|up_1|NZ_CP019574.1_163331_164819_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|320aa|up_0|NZ_CP019574.1_165464_166424_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|68aa|down_0|NZ_CP019574.1_166718_166922_-	NA	NA|171aa|down_1|NZ_CP019574.1_167099_167612_+	pfam14026, DUF4242, Protein of unknown function (DUF4242)	NA|247aa|down_2|NZ_CP019574.1_167953_168694_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|325aa|down_3|NZ_CP019574.1_168707_169682_+	cd13553, PBP2_NrtA_CpmA_like, Substrate binding domain of ABC-type nitrate/bicarbonate transporters, a member of the type 2 periplasmic binding fold superfamily	NA|254aa|down_4|NZ_CP019574.1_169678_170440_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|344aa|down_5|NZ_CP019574.1_170452_171484_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|120aa|down_6|NZ_CP019574.1_171700_172060_+	COG5609, COG5609, Uncharacterized conserved protein [Function unknown]	NA|342aa|down_7|NZ_CP019574.1_172233_173259_+	PRK07574, PRK07574, NAD-dependent formate dehydrogenase	NA|417aa|down_8|NZ_CP019574.1_173644_174895_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|2392aa|down_9|NZ_CP019574.1_175341_182517_+	PRK12467, PRK12467, peptide synthase; Provisional
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	2	651188-651276	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGAT	28	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|36aa|up_3|NZ_CP019574.1_647736_647844_+,NA|169aa|down_4|NZ_CP019574.1_655027_655534_+,NA|68aa|down_9|NZ_CP019574.1_660303_660507_-	NA|313aa|up_9|NZ_CP019574.1_641937_642876_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NZ_CP019574.1_643086_643623_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NZ_CP019574.1_643791_644268_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NZ_CP019574.1_644307_645603_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NZ_CP019574.1_645630_646152_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NZ_CP019574.1_646649_647660_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NZ_CP019574.1_647736_647844_+	NA	NA|128aa|up_2|NZ_CP019574.1_647969_648353_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NZ_CP019574.1_648349_650011_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NZ_CP019574.1_650401_651037_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|276aa|down_0|NZ_CP019574.1_651407_652235_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NZ_CP019574.1_652383_653334_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NZ_CP019574.1_653388_654108_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NZ_CP019574.1_654091_654892_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NZ_CP019574.1_655027_655534_+	NA	NA|263aa|down_5|NZ_CP019574.1_656579_657368_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_6|NZ_CP019574.1_657616_657991_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_7|NZ_CP019574.1_658938_659868_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_8|NZ_CP019574.1_660062_660287_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)	NA|68aa|down_9|NZ_CP019574.1_660303_660507_-	NA
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	3	808320-808400	3	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	TTCTTTATGTTGGGGCCCCGCCAACT	26	1	14	808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374|808346-808374	NZ_CP019574.1_2768971-2768999|NZ_CP019574.1_367676-367648|NZ_CP019574.1_1220915-1220887|NZ_CP019574.1_1478050-1478022|NZ_CP019574.1_1835899-1835871|NZ_CP019574.1_166588-166560|NZ_CP019574.1_274655-274683|NZ_CP019574.1_289961-289933|NZ_CP019574.1_813777-813805|NZ_CP019574.1_870254-870282|NZ_CP019574.1_919015-918987|NZ_CP019574.1_1136957-1136929|NZ_CP019574.1_1137068-1137040|NZ_CP019574.1_1658657-1658685	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA|35aa|up_6|NZ_CP019574.1_799232_799337_+,NA|36aa|up_5|NZ_CP019574.1_800770_800878_+,NA	NA|225aa|up_9|NZ_CP019574.1_794937_795612_+	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|191aa|up_8|NZ_CP019574.1_795672_796245_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_7|NZ_CP019574.1_796659_799191_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_6|NZ_CP019574.1_799232_799337_+	NA	NA|36aa|up_5|NZ_CP019574.1_800770_800878_+	NA	NA|280aa|up_4|NZ_CP019574.1_801025_801865_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NZ_CP019574.1_802038_802689_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NZ_CP019574.1_802685_802922_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NZ_CP019574.1_803190_805176_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NZ_CP019574.1_805183_808030_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NZ_CP019574.1_808636_809569_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NZ_CP019574.1_809574_810414_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NZ_CP019574.1_810421_810907_+	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|312aa|down_3|NZ_CP019574.1_812419_813355_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_4|NZ_CP019574.1_814116_815028_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_5|NZ_CP019574.1_815024_816020_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_6|NZ_CP019574.1_816130_817075_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_7|NZ_CP019574.1_817647_818235_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_8|NZ_CP019574.1_818477_819380_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_9|NZ_CP019574.1_820082_820712_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	4	870189-870269	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCAACTTGCATTGTCTGTAGAA	23	1	1	870212-870246	NZ_CP019574.1_1435074-1435108	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|38aa|up_1|NZ_CP019574.1_869091_869205_+,NA	NA|187aa|up_9|NZ_CP019574.1_863314_863875_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|165aa|up_8|NZ_CP019574.1_864718_865213_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|NZ_CP019574.1_865611_866034_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|NZ_CP019574.1_866181_866898_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|NZ_CP019574.1_866980_867520_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|NZ_CP019574.1_867669_867990_-	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|NZ_CP019574.1_868133_868490_+	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|NZ_CP019574.1_868647_869028_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|NZ_CP019574.1_869091_869205_+	NA	NA|293aa|up_0|NZ_CP019574.1_869206_870085_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_CP019574.1_870822_871209_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_CP019574.1_871201_871498_+	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|232aa|down_2|NZ_CP019574.1_872763_873459_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_3|NZ_CP019574.1_873476_874298_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_4|NZ_CP019574.1_874651_874846_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_5|NZ_CP019574.1_875078_875930_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_6|NZ_CP019574.1_876257_877019_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_7|NZ_CP019574.1_877116_878424_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|414aa|down_8|NZ_CP019574.1_878538_879780_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|155aa|down_9|NZ_CP019574.1_879769_880234_+	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	5	1692943-1693028	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TCTGTGTTGGGGCCCCATCCCCAACTT	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|49aa|down_3|NZ_CP019574.1_1697030_1697177_-,NA|43aa|down_8|NZ_CP019574.1_1700213_1700342_-	NA|159aa|up_9|NZ_CP019574.1_1681174_1681651_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|208aa|up_8|NZ_CP019574.1_1681678_1682302_-	PRK05480, PRK05480, uridine/cytidine kinase; Provisional	NA|423aa|up_7|NZ_CP019574.1_1682301_1683570_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|308aa|up_6|NZ_CP019574.1_1683581_1684505_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|213aa|up_5|NZ_CP019574.1_1684507_1685146_-	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|103aa|up_4|NZ_CP019574.1_1685430_1685739_-	PRK13678, PRK13678, hypothetical protein; Provisional	NA|143aa|up_3|NZ_CP019574.1_1685753_1686182_-	COG0816, COG0816, Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B	NA|87aa|up_2|NZ_CP019574.1_1686185_1686446_-	PRK05473, IreB-like, IreB family regulatory phosphoprotein	NA|826aa|up_1|NZ_CP019574.1_1689482_1691960_-	TIGR01448, recD_rel, helicase, putative, RecD/TraA family	NA|223aa|up_0|NZ_CP019574.1_1691961_1692630_-	sd00006, TPR, Tetratricopeptide repeat	NA|373aa|down_0|NZ_CP019574.1_1693208_1694327_-	PRK00143, mnmA, tRNA-specific 2-thiouridylase MnmA; Reviewed	NA|381aa|down_1|NZ_CP019574.1_1694327_1695470_-	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]	NA|338aa|down_2|NZ_CP019574.1_1695780_1696794_+	TIGR03558, oxido_grp_1, luciferase family oxidoreductase, group 1	NA|49aa|down_3|NZ_CP019574.1_1697030_1697177_-	NA	NA|61aa|down_4|NZ_CP019574.1_1697216_1697399_-	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|141aa|down_5|NZ_CP019574.1_1697498_1697921_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|425aa|down_6|NZ_CP019574.1_1698005_1699280_+	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|258aa|down_7|NZ_CP019574.1_1699440_1700214_-	COG1179, COG1179, Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]	NA|43aa|down_8|NZ_CP019574.1_1700213_1700342_-	NA	NA|589aa|down_9|NZ_CP019574.1_1700674_1702441_-	PRK00476, aspS, aspartyl-tRNA synthetase; Validated
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	6	1778677-1778761	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	ATGCAAGTTGGGGTGGGGCCCAACATAGA	29	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|33aa|down_4|NZ_CP019574.1_1783086_1783185_-	NA|235aa|up_9|NZ_CP019574.1_1761962_1762667_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|423aa|up_8|NZ_CP019574.1_1763056_1764325_-	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|374aa|up_7|NZ_CP019574.1_1764373_1765495_-	PRK14035, PRK14035, citrate synthase; Provisional	NA|586aa|up_6|NZ_CP019574.1_1767550_1769308_-	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|323aa|up_5|NZ_CP019574.1_1769329_1770298_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|315aa|up_4|NZ_CP019574.1_1770565_1771510_-	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|286aa|up_3|NZ_CP019574.1_1771509_1772367_-	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|410aa|up_2|NZ_CP019574.1_1772561_1773791_-	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|1066aa|up_1|NZ_CP019574.1_1774240_1777438_-	COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]	NA|314aa|up_0|NZ_CP019574.1_1777458_1778400_-	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|433aa|down_0|NZ_CP019574.1_1778852_1780151_-	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|138aa|down_1|NZ_CP019574.1_1780355_1780769_+	pfam00582, Usp, Universal stress protein family	NA|230aa|down_2|NZ_CP019574.1_1781073_1781763_-	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|352aa|down_3|NZ_CP019574.1_1781937_1782993_+	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|33aa|down_4|NZ_CP019574.1_1783086_1783185_-	NA	NA|373aa|down_5|NZ_CP019574.1_1783308_1784427_-	cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic domains	NA|167aa|down_6|NZ_CP019574.1_1784567_1785068_+	pfam00582, Usp, Universal stress protein family	NA|401aa|down_7|NZ_CP019574.1_1785313_1786516_-	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed	NA|316aa|down_8|NZ_CP019574.1_1786603_1787551_-	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|165aa|down_9|NZ_CP019574.1_1787673_1788168_-	PRK00522, tpx, thiol peroxidase
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	7	2220134-2220214	7	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	CAACTTTAGTTGTTAGGGGCTCTT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|NZ_CP019574.1_2215005_2215236_-,NA|364aa|up_0|NZ_CP019574.1_2219025_2220117_+,NA|35aa|down_0|NZ_CP019574.1_2220549_2220654_-,NA|53aa|down_1|NZ_CP019574.1_2221333_2221492_+	NA|237aa|up_9|NZ_CP019574.1_2210615_2211326_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP019574.1_2211446_2211890_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP019574.1_2212089_2212503_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP019574.1_2212960_2214334_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP019574.1_2215005_2215236_-	NA	NA|313aa|up_4|NZ_CP019574.1_2215266_2216205_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP019574.1_2216640_2217306_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP019574.1_2217457_2217778_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_CP019574.1_2217779_2218760_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP019574.1_2219025_2220117_+	NA	NA|35aa|down_0|NZ_CP019574.1_2220549_2220654_-	NA	NA|53aa|down_1|NZ_CP019574.1_2221333_2221492_+	NA	NA|286aa|down_2|NZ_CP019574.1_2222150_2223008_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|NZ_CP019574.1_2223075_2223858_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_4|NZ_CP019574.1_2224089_2225895_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|515aa|down_5|NZ_CP019574.1_2226575_2228120_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_6|NZ_CP019574.1_2228147_2230280_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_7|NZ_CP019574.1_2230291_2230726_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_8|NZ_CP019574.1_2230725_2231832_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|down_9|NZ_CP019574.1_2239942_2241298_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	8	2232455-2232541	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	GCCAACTGATGTTTGCGTATCATTAGT	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|364aa|up_9|NZ_CP019574.1_2219025_2220117_+,NA|35aa|up_8|NZ_CP019574.1_2220549_2220654_-,NA|53aa|up_7|NZ_CP019574.1_2221333_2221492_+,NA	NA|364aa|up_9|NZ_CP019574.1_2219025_2220117_+	NA	NA|35aa|up_8|NZ_CP019574.1_2220549_2220654_-	NA	NA|53aa|up_7|NZ_CP019574.1_2221333_2221492_+	NA	NA|286aa|up_6|NZ_CP019574.1_2222150_2223008_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|up_5|NZ_CP019574.1_2223075_2223858_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|up_4|NZ_CP019574.1_2224089_2225895_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|515aa|up_3|NZ_CP019574.1_2226575_2228120_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_2|NZ_CP019574.1_2228147_2230280_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_1|NZ_CP019574.1_2230291_2230726_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_0|NZ_CP019574.1_2230725_2231832_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|down_0|NZ_CP019574.1_2239942_2241298_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_1|NZ_CP019574.1_2241324_2242257_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|down_2|NZ_CP019574.1_2242258_2243068_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|down_3|NZ_CP019574.1_2243255_2244164_-	cd09989, Arginase, Arginase family	NA|355aa|down_4|NZ_CP019574.1_2250236_2251301_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|481aa|down_5|NZ_CP019574.1_2251448_2252891_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|158aa|down_6|NZ_CP019574.1_2253213_2253687_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|448aa|down_7|NZ_CP019574.1_2253785_2255129_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|228aa|down_8|NZ_CP019574.1_2255305_2255989_-	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|396aa|down_9|NZ_CP019574.1_2256007_2257195_-	cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	9	2331509-2331594	9	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	1	2331539-2331564	NZ_CP019574.1_1136876-1136851	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NZ_CP019574.1_2322082_2322247_+,NA|106aa|up_8|NZ_CP019574.1_2322491_2322809_+,NA|84aa|up_5|NZ_CP019574.1_2327930_2328182_+,NA|57aa|up_0|NZ_CP019574.1_2331319_2331490_+,NA	NA|55aa|up_9|NZ_CP019574.1_2322082_2322247_+	NA	NA|106aa|up_8|NZ_CP019574.1_2322491_2322809_+	NA	NA|1056aa|up_7|NZ_CP019574.1_2322992_2326160_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP019574.1_2326276_2327542_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP019574.1_2327930_2328182_+	NA	NA|255aa|up_4|NZ_CP019574.1_2328173_2328938_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP019574.1_2329098_2329539_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|393aa|up_2|NZ_CP019574.1_2329563_2330742_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP019574.1_2330843_2331194_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NZ_CP019574.1_2331319_2331490_+	NA	NA|200aa|down_0|NZ_CP019574.1_2332813_2333413_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_1|NZ_CP019574.1_2333419_2333653_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_2|NZ_CP019574.1_2333658_2334105_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_3|NZ_CP019574.1_2334118_2334604_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_4|NZ_CP019574.1_2334600_2335860_-	cd00887, MoeA, MoeA family	NA|165aa|down_5|NZ_CP019574.1_2335922_2336417_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_6|NZ_CP019574.1_2336418_2336925_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_7|NZ_CP019574.1_2336955_2337960_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_8|NZ_CP019574.1_2338129_2338735_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|224aa|down_9|NZ_CP019574.1_2338735_2339407_-	COG4149, ModC, ABC-type molybdate transport system, permease component [Inorganic ion transport and metabolism]
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	10	2498383-2498461	10	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCAACTTGCATTGTCTCTAGAAA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|56aa|up_2|NZ_CP019574.1_2494164_2494332_-,NA|36aa|down_0|NZ_CP019574.1_2498767_2498875_-	NA|326aa|up_9|NZ_CP019574.1_2487775_2488753_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|up_8|NZ_CP019574.1_2488804_2489272_-	pfam06177, QueT, QueT transporter	NA|231aa|up_7|NZ_CP019574.1_2489282_2489975_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|up_6|NZ_CP019574.1_2489985_2491101_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|336aa|up_5|NZ_CP019574.1_2491078_2492086_-	PRK06256, PRK06256, biotin synthase; Validated	NA|453aa|up_4|NZ_CP019574.1_2492087_2493446_-	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase	NA|229aa|up_3|NZ_CP019574.1_2493423_2494110_-	COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism]	NA|56aa|up_2|NZ_CP019574.1_2494164_2494332_-	NA	NA|578aa|up_1|NZ_CP019574.1_2494562_2496296_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|588aa|up_0|NZ_CP019574.1_2496320_2498084_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|36aa|down_0|NZ_CP019574.1_2498767_2498875_-	NA	NA|129aa|down_1|NZ_CP019574.1_2499008_2499395_-	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|381aa|down_2|NZ_CP019574.1_2499652_2500795_+	TIGR00045, Glycerate_kinase, glycerate kinase	NA|220aa|down_3|NZ_CP019574.1_2500854_2501514_+	PHA02562, 46, endonuclease subunit; Provisional	NA|404aa|down_4|NZ_CP019574.1_2501695_2502907_+	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|158aa|down_5|NZ_CP019574.1_2503029_2503503_-	COG3708, COG3708, Uncharacterized protein conserved in bacteria [Function unknown]	NA|219aa|down_6|NZ_CP019574.1_2503615_2504272_+	COG4990, COG4990, Uncharacterized protein conserved in bacteria [Function unknown]	NA|269aa|down_7|NZ_CP019574.1_2504334_2505141_-	TIGR03729, acc_ester, putative phosphoesterase	NA|470aa|down_8|NZ_CP019574.1_2505426_2506836_+	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|693aa|down_9|NZ_CP019574.1_2506973_2509052_+	COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]
GCF_002795285.1_ASM279528v1	NZ_CP019574	Staphylococcus aureus strain USA400-0051 chromosome, complete genome	11	2636473-2636580	11	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	ATTATTATAAATAATAAGTACACTACGGTTTACAGTTGG	39	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|56aa|up_4|NZ_CP019574.1_2630613_2630781_-,NA|64aa|up_1|NZ_CP019574.1_2633464_2633656_+,NA|163aa|down_7|NZ_CP019574.1_2644589_2645078_-	NA|57aa|up_9|NZ_CP019574.1_2624724_2624895_-	pfam12669, P12, Virus attachment protein p12 family	NA|665aa|up_8|NZ_CP019574.1_2624907_2626902_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|up_7|NZ_CP019574.1_2626913_2627141_-	COG1918, FeoA, Fe2+ transport system protein A [Inorganic ion transport and metabolism]	NA|870aa|up_6|NZ_CP019574.1_2627235_2629845_-	COG2409, COG2409, Predicted drug exporters of the RND superfamily [General function prediction only]	NA|183aa|up_5|NZ_CP019574.1_2629989_2630538_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|56aa|up_4|NZ_CP019574.1_2630613_2630781_-	NA	NA|515aa|up_3|NZ_CP019574.1_2630892_2632437_-	PRK03137, PRK03137, 1-pyrroline-5-carboxylate dehydrogenase; Provisional	NA|200aa|up_2|NZ_CP019574.1_2632626_2633226_-	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates	NA|64aa|up_1|NZ_CP019574.1_2633464_2633656_+	NA	NA|803aa|up_0|NZ_CP019574.1_2633895_2636304_+	cd02094, P-type_ATPase_Cu-like, P-type heavy metal-transporting ATPase, similar to human copper-transporting ATPases, ATP7A and ATP7B	NA|69aa|down_0|NZ_CP019574.1_2636652_2636859_+	COG2608, CopZ, Copper chaperone [Inorganic ion transport and metabolism]	NA|333aa|down_1|NZ_CP019574.1_2636948_2637947_-	PRK08605, PRK08605, D-lactate dehydrogenase; Validated	NA|385aa|down_2|NZ_CP019574.1_2637969_2639124_-	PRK08068, PRK08068, transaminase; Reviewed	NA|503aa|down_3|NZ_CP019574.1_2639550_2641059_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|288aa|down_4|NZ_CP019574.1_2641070_2641934_-	COG1562, ERG9, Phytoene/squalene synthetase [Lipid metabolism]	NA|376aa|down_5|NZ_CP019574.1_2641970_2643098_-	cd00761, Glyco_tranf_GTA_type, Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold	NA|498aa|down_6|NZ_CP019574.1_2643103_2644597_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|163aa|down_7|NZ_CP019574.1_2644589_2645078_-	NA	NA|256aa|down_8|NZ_CP019574.1_2645252_2646020_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|604aa|down_9|NZ_CP019574.1_2646380_2648192_-	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]
