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_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	1	188387-188471	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	4	188413-188445|188413-188445|188413-188445|188413-188445	NC_009782.1_1426554-1426586|NC_009782.1_849335-849303|NC_009782.1_849394-849362|NC_009782.1_1514934-1514902	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|402aa|up_9|NC_009782.1_177532_178738_+,NA|68aa|down_0|NC_009782.1_188532_188736_-	NA|402aa|up_9|NC_009782.1_177532_178738_+	NA	NA|402aa|up_8|NC_009782.1_178738_179944_+	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|186aa|up_7|NC_009782.1_179954_180512_+	COG2148, WcaJ, Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]	NA|296aa|up_6|NC_009782.1_180511_181399_+	cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs	NA|421aa|up_5|NC_009782.1_181452_182715_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|382aa|up_4|NC_009782.1_182791_183937_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|109aa|up_3|NC_009782.1_184001_184328_-	PRK13313, PRK13313, staphylobilin-forming heme oxygenase IsdI	NA|128aa|up_2|NC_009782.1_184334_184718_-	pfam04304, DUF454, Protein of unknown function (DUF454)	NA|496aa|up_1|NC_009782.1_185144_186632_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|320aa|up_0|NC_009782.1_187278_188238_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|68aa|down_0|NC_009782.1_188532_188736_-	NA	NA|171aa|down_1|NC_009782.1_188914_189427_+	pfam14026, DUF4242, Protein of unknown function (DUF4242)	NA|247aa|down_2|NC_009782.1_189768_190509_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|324aa|down_3|NC_009782.1_190522_191494_+	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|NC_009782.1_191490_192252_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|344aa|down_5|NC_009782.1_192264_193296_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|120aa|down_6|NC_009782.1_193512_193872_+	COG5609, COG5609, Uncharacterized conserved protein [Function unknown]	NA|342aa|down_7|NC_009782.1_194045_195071_+	PRK07574, PRK07574, NAD-dependent formate dehydrogenase	NA|417aa|down_8|NC_009782.1_195456_196707_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|2392aa|down_9|NC_009782.1_197153_204329_+	PRK12467, PRK12467, peptide synthase; Provisional
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	2	428173-428274	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|70aa|up_9|NC_009782.1_418212_418422_-,NA|128aa|up_7|NC_009782.1_419246_419630_-,NA|33aa|up_1|NC_009782.1_425877_425976_+,NA|221aa|down_1|NC_009782.1_429364_430027_-	NA|70aa|up_9|NC_009782.1_418212_418422_-	NA	NA|194aa|up_8|NC_009782.1_418599_419181_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_7|NC_009782.1_419246_419630_-	NA	NA|209aa|up_6|NC_009782.1_419899_420526_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_5|NC_009782.1_420969_422493_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_4|NC_009782.1_422508_423078_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_3|NC_009782.1_423569_424325_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_2|NC_009782.1_424404_425793_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|33aa|up_1|NC_009782.1_425877_425976_+	NA	NA|440aa|up_0|NC_009782.1_426639_427959_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|319aa|down_0|NC_009782.1_428290_429247_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|221aa|down_1|NC_009782.1_429364_430027_-	NA	NA|136aa|down_2|NC_009782.1_430169_430577_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NC_009782.1_431089_431668_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NC_009782.1_431667_432936_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NC_009782.1_432973_434440_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NC_009782.1_434464_436006_+	PRK00074, guaA, GMP synthase; Reviewed	NA|398aa|down_7|NC_009782.1_436073_437267_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|67aa|down_8|NC_009782.1_437293_437494_-	pfam11372, DUF3173, Domain of unknown function (DUF3173)	NA|77aa|down_9|NC_009782.1_437991_438222_-	pfam12645, HTH_16, Helix-turn-helix domain
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	3	843745-843823	3	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,RT,WYL	Unclear	TGTAGAATTTCTTTTCGAAATTCT	24	1	3	843769-843799|843769-843799|843769-843799	NC_009782.1_311613-311583|NC_009782.1_311558-311528|NC_009782.1_1730878-1730908	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,RT,WYL	NA|35aa|up_7|NC_009782.1_834621_834726_+,NA|36aa|up_5|NC_009782.1_836158_836266_+,NA	NA|191aa|up_9|NC_009782.1_831062_831635_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_8|NC_009782.1_832048_834580_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_7|NC_009782.1_834621_834726_+	NA	NA|370aa|up_6|NC_009782.1_834894_836005_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|36aa|up_5|NC_009782.1_836158_836266_+	NA	NA|280aa|up_4|NC_009782.1_836413_837253_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NC_009782.1_837426_838077_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NC_009782.1_838073_838310_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NC_009782.1_838578_840564_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NC_009782.1_840571_843418_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NC_009782.1_844081_845014_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NC_009782.1_845019_845859_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NC_009782.1_845866_846352_+	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|NC_009782.1_846359_847799_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|NC_009782.1_847865_848801_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|NC_009782.1_849745_850657_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|NC_009782.1_850653_851649_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|NC_009782.1_851759_852704_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|NC_009782.1_853267_853855_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_9|NC_009782.1_854097_855000_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	4	907229-907310	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	1	907253-907286	NC_009782.1_1426586-1426553	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA,NA	NA|194aa|up_9|NC_009782.1_900331_900913_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NC_009782.1_900985_901603_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NC_009782.1_901757_902252_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NC_009782.1_902650_903073_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NC_009782.1_903220_903937_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NC_009782.1_904019_904559_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NC_009782.1_904709_905030_-	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|NC_009782.1_905173_905530_+	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|NC_009782.1_905687_906068_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NC_009782.1_906246_907125_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NC_009782.1_907921_908308_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NC_009782.1_908300_908597_+	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|NC_009782.1_908846_909872_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NC_009782.1_909864_910560_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NC_009782.1_910577_911399_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|NC_009782.1_911752_911947_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|NC_009782.1_912180_913032_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|NC_009782.1_913359_914121_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|NC_009782.1_914218_915526_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_9|NC_009782.1_915631_916882_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	5	1696396-1696480	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	CACCCCAACTTGCATTGTCTGTAGAA	26	1	3	1696422-1696454|1696422-1696454|1696422-1696454	NC_009782.1_849303-849335|NC_009782.1_849362-849394|NC_009782.1_1426586-1426554	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA,NA	NA|228aa|up_9|NC_009782.1_1685605_1686289_-	COG1030, NfeD, Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]	NA|59aa|up_8|NC_009782.1_1686532_1686709_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|449aa|up_7|NC_009782.1_1687001_1688348_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|251aa|up_6|NC_009782.1_1688354_1689107_-	COG1385, COG1385, Uncharacterized protein conserved in bacteria [Function unknown]	NA|313aa|up_5|NC_009782.1_1689108_1690047_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	NA|380aa|up_4|NC_009782.1_1690050_1691190_-	PRK14280, PRK14280, molecular chaperone DnaJ	NA|611aa|up_3|NC_009782.1_1691325_1693158_-	PRK00290, dnaK, molecular chaperone DnaK; Provisional	NA|209aa|up_2|NC_009782.1_1693226_1693853_-	PRK14140, PRK14140, heat shock protein GrpE; Provisional	NA|326aa|up_1|NC_009782.1_1693884_1694862_-	TIGR00331, Heat-inducible_transcription_repressor_HrcA, heat shock gene repressor HrcA	NA|375aa|up_0|NC_009782.1_1694962_1696087_-	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|608aa|down_0|NC_009782.1_1696652_1698476_-	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|84aa|down_1|NC_009782.1_1698821_1699073_+	PRK00239, rpsT, 30S ribosomal protein S20; Reviewed	NA|325aa|down_2|NC_009782.1_1699117_1700092_-	PRK05574, holA, DNA polymerase III subunit delta; Reviewed	NA|734aa|down_3|NC_009782.1_1700148_1702350_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|154aa|down_4|NC_009782.1_1702354_1702816_-	TIGR02571, putative_dCMP_deaminase, ComE operon protein 2	NA|229aa|down_5|NC_009782.1_1702907_1703594_-	COG1555, ComEA, DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]	NA|239aa|down_6|NC_009782.1_1703633_1704350_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|118aa|down_7|NC_009782.1_1704352_1704706_-	COG0799, COG0799, Uncharacterized homolog of plant Iojap protein [Function unknown]	NA|195aa|down_8|NC_009782.1_1704706_1705291_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|190aa|down_9|NC_009782.1_1705280_1705850_-	TIGR00482, Probable_nicotinate-nucleotide_adenylyltransferase, nicotinate (nicotinamide) nucleotide adenylyltransferase
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	6	2132669-2132750	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	GGCCCCCACCCCAACTTACATTGT	24	1	5	2132693-2132726|2132693-2132726|2132693-2132726|2132693-2132726|2132693-2132726	NC_009782.1_843744-843777|NC_009782.1_1214846-1214813|NC_009782.1_1824665-1824632|NC_009782.1_1430927-1430960|NC_009782.1_2839458-2839491	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|87aa|up_9|NC_009782.1_2123354_2123615_-,NA|61aa|up_5|NC_009782.1_2125664_2125847_+,NA|114aa|down_6|NC_009782.1_2140557_2140899_-,NA|193aa|down_9|NC_009782.1_2141715_2142294_-	NA|87aa|up_9|NC_009782.1_2123354_2123615_-	NA	NA|81aa|up_8|NC_009782.1_2123628_2123871_-	pfam05339, DUF739, Protein of unknown function (DUF739)	NA|239aa|up_7|NC_009782.1_2124034_2124751_+	COG2932, COG2932, Predicted transcriptional regulator [Transcription]	NA|286aa|up_6|NC_009782.1_2124762_2125620_+	smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p	NA|61aa|up_5|NC_009782.1_2125664_2125847_+	NA	NA|155aa|up_4|NC_009782.1_2126016_2126481_+	PRK08119, PRK08119, flagellar motor switch protein; Validated	NA|346aa|up_3|NC_009782.1_2126539_2127577_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|339aa|up_2|NC_009782.1_2128695_2129712_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|352aa|up_1|NC_009782.1_2129733_2130789_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|385aa|up_0|NC_009782.1_2131224_2132379_+	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|436aa|down_0|NC_009782.1_2132891_2134199_+	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|241aa|down_1|NC_009782.1_2135215_2135938_+	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|267aa|down_2|NC_009782.1_2136106_2136907_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|187aa|down_3|NC_009782.1_2137693_2138254_+	cd15783, SA1633_like, Uncharacterized protein family conserved in Staphylococci	NA|235aa|down_4|NC_009782.1_2139132_2139837_+	PRK13038, PRK13038, superantigen-like protein; Reviewed	NA|190aa|down_5|NC_009782.1_2139991_2140561_-	COG3728, XtmA, Phage terminase, small subunit [DNA replication, recombination, and repair]	NA|114aa|down_6|NC_009782.1_2140557_2140899_-	NA	NA|176aa|down_7|NC_009782.1_2140901_2141429_-	COG5577, COG5577, Spore coat protein [Cell envelope biogenesis, outer membrane]	NA|73aa|down_8|NC_009782.1_2141479_2141698_-	pfam16722, SAPIS-gp6, Pathogenicity island protein gp6 in Staphylococcus	NA|193aa|down_9|NC_009782.1_2141715_2142294_-	NA
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	7	2148325-2148413	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	GTTTTTGACTGACTTCTCAATCA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|114aa|up_9|NC_009782.1_2142305_2142647_-,NA|127aa|up_7|NC_009782.1_2143745_2144126_-,NA|70aa|up_3|NC_009782.1_2147421_2147631_-,NA|49aa|up_2|NC_009782.1_2147623_2147770_-,NA	NA|114aa|up_9|NC_009782.1_2142305_2142647_-	NA	NA|214aa|up_8|NC_009782.1_2143107_2143749_-	pfam16560, SAPI, Putative mobile pathogenicity island	NA|127aa|up_7|NC_009782.1_2143745_2144126_-	NA	NA|570aa|up_6|NC_009782.1_2144435_2146145_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|290aa|up_5|NC_009782.1_2146158_2147028_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|109aa|up_4|NC_009782.1_2147092_2147419_-	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|70aa|up_3|NC_009782.1_2147421_2147631_-	NA	NA|49aa|up_2|NC_009782.1_2147623_2147770_-	NA	NA|106aa|up_1|NC_009782.1_2147766_2148084_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|73aa|up_0|NC_009782.1_2148088_2148307_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|225aa|down_0|NC_009782.1_2148479_2149154_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|391aa|down_1|NC_009782.1_2149167_2150340_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|539aa|down_2|NC_009782.1_2150408_2152025_-	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|95aa|down_3|NC_009782.1_2152100_2152385_-	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|248aa|down_4|NC_009782.1_2152559_2153303_+	pfam02517, Abi, CAAX protease self-immunity	NA|416aa|down_5|NC_009782.1_2153327_2154575_-	PRK10819, PRK10819, transport protein TonB; Provisional	NA|209aa|down_6|NC_009782.1_2154771_2155398_+	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|262aa|down_7|NC_009782.1_2155758_2156544_+	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|45aa|down_8|NC_009782.1_2157143_2157278_-	PRK14752, PRK14752, delta-lysin family phenol-soluble modulin	NA|188aa|down_9|NC_009782.1_2157513_2158077_+	COG4512, AgrB, Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	8	2277486-2277566	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,RT,WYL	Type I-A	CAACTTTAGTTGTTAGGGGCTCTT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|77aa|up_5|NC_009782.1_2272360_2272591_-,NA|364aa|up_0|NC_009782.1_2276377_2277469_+,NA|35aa|down_0|NC_009782.1_2277901_2278006_-,NA|53aa|down_2|NC_009782.1_2278685_2278844_+	NA|237aa|up_9|NC_009782.1_2267971_2268682_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NC_009782.1_2268802_2269246_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NC_009782.1_2269445_2269859_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NC_009782.1_2270315_2271689_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NC_009782.1_2272360_2272591_-	NA	NA|313aa|up_4|NC_009782.1_2272621_2273560_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NC_009782.1_2273995_2274661_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NC_009782.1_2274812_2275133_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|326aa|up_1|NC_009782.1_2275134_2276112_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NC_009782.1_2276377_2277469_+	NA	NA|35aa|down_0|NC_009782.1_2277901_2278006_-	NA	NA|57aa|down_1|NC_009782.1_2278522_2278693_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|down_2|NC_009782.1_2278685_2278844_+	NA	NA|286aa|down_3|NC_009782.1_2279501_2280359_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NC_009782.1_2280426_2281209_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NC_009782.1_2281440_2283246_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NC_009782.1_2283926_2285465_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NC_009782.1_2285499_2287632_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NC_009782.1_2287643_2288078_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NC_009782.1_2288077_2289184_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	9	2289807-2289892	9	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,RT,WYL	Type I-A	CCAACTGATTTTTGCGTATCATTAGT	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|35aa|up_9|NC_009782.1_2277901_2278006_-,NA|53aa|up_7|NC_009782.1_2278685_2278844_+,NA	NA|35aa|up_9|NC_009782.1_2277901_2278006_-	NA	NA|57aa|up_8|NC_009782.1_2278522_2278693_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|up_7|NC_009782.1_2278685_2278844_+	NA	NA|286aa|up_6|NC_009782.1_2279501_2280359_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|up_5|NC_009782.1_2280426_2281209_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|up_4|NC_009782.1_2281440_2283246_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|up_3|NC_009782.1_2283926_2285465_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_2|NC_009782.1_2285499_2287632_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_1|NC_009782.1_2287643_2288078_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_0|NC_009782.1_2288077_2289184_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|down_0|NC_009782.1_2297225_2298581_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_1|NC_009782.1_2298607_2299540_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|down_2|NC_009782.1_2299541_2300351_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|down_3|NC_009782.1_2300539_2301448_-	cd09989, Arginase, Arginase family	NA|355aa|down_4|NC_009782.1_2307688_2308753_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|481aa|down_5|NC_009782.1_2308900_2310343_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|158aa|down_6|NC_009782.1_2310665_2311139_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|228aa|down_7|NC_009782.1_2312537_2313221_-	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|396aa|down_8|NC_009782.1_2313239_2314427_-	cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc	NA|172aa|down_9|NC_009782.1_2314470_2314986_-	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]
GCF_000010445.1_ASM1044v1	NC_009782	Staphylococcus aureus subsp. aureus Mu3, complete genome	10	2397566-2397646	10	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TCTATGTTGGGGCCCCGCCAACTTG	25	1	17	2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621|2397591-2397621	NC_009782.1_856547-856577|NC_009782.1_856603-856633|NC_009782.1_856659-856689|NC_009782.1_856715-856745|NC_009782.1_89901-89931|NC_009782.1_387946-387916|NC_009782.1_677474-677444|NC_009782.1_856771-856801|NC_009782.1_907565-907595|NC_009782.1_1117822-1117852|NC_009782.1_1220444-1220414|NC_009782.1_1426542-1426512|NC_009782.1_1514946-1514976|NC_009782.1_1711090-1711060|NC_009782.1_2029933-2029963|NC_009782.1_2386790-2386820|NC_009782.1_2563824-2563854	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|55aa|up_9|NC_009782.1_2388099_2388264_+,NA|106aa|up_8|NC_009782.1_2388508_2388826_+,NA|84aa|up_5|NC_009782.1_2393947_2394199_+,NA|62aa|up_0|NC_009782.1_2397338_2397524_+,NA	NA|55aa|up_9|NC_009782.1_2388099_2388264_+	NA	NA|106aa|up_8|NC_009782.1_2388508_2388826_+	NA	NA|1056aa|up_7|NC_009782.1_2389009_2392177_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NC_009782.1_2392293_2393559_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NC_009782.1_2393947_2394199_+	NA	NA|255aa|up_4|NC_009782.1_2394190_2394955_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NC_009782.1_2395116_2395557_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NC_009782.1_2395549_2396761_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NC_009782.1_2396862_2397213_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|62aa|up_0|NC_009782.1_2397338_2397524_+	NA	NA|341aa|down_0|NC_009782.1_2397789_2398812_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NC_009782.1_2398831_2399431_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NC_009782.1_2399437_2399671_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NC_009782.1_2399676_2400123_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NC_009782.1_2400136_2400622_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NC_009782.1_2400618_2401878_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NC_009782.1_2401940_2402435_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NC_009782.1_2402436_2402943_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NC_009782.1_2402973_2403978_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NC_009782.1_2404147_2404753_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
