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_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	1	375411-375511	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|70aa|up_8|NC_016912.1_366983_367193_-,NA|128aa|up_6|NC_016912.1_368017_368401_-,NA|34aa|up_0|NC_016912.1_374635_374737_+,NA|221aa|down_1|NC_016912.1_376601_377264_-,NA|179aa|down_7|NC_016912.1_383355_383892_-	NA|84aa|up_9|NC_016912.1_366693_366945_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NC_016912.1_366983_367193_-	NA	NA|194aa|up_7|NC_016912.1_367370_367952_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NC_016912.1_368017_368401_-	NA	NA|209aa|up_5|NC_016912.1_368655_369282_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NC_016912.1_369726_371250_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NC_016912.1_371265_371835_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NC_016912.1_372326_373082_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NC_016912.1_373162_374551_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NC_016912.1_374635_374737_+	NA	NA|319aa|down_0|NC_016912.1_375527_376484_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NC_016912.1_376601_377264_-	NA	NA|136aa|down_2|NC_016912.1_377406_377814_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NC_016912.1_378326_378905_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NC_016912.1_378904_380173_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NC_016912.1_380210_381677_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NC_016912.1_381701_383243_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NC_016912.1_383355_383892_-	NA	NA|235aa|down_8|NC_016912.1_384284_384989_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NC_016912.1_385387_385660_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	2	604864-604956	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|36aa|up_3|NC_016912.1_601347_601455_+,NA|169aa|down_4|NC_016912.1_608703_609210_+,NA|239aa|down_5|NC_016912.1_609371_610088_+	NA|313aa|up_9|NC_016912.1_595549_596488_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NC_016912.1_596698_597235_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NC_016912.1_597403_597880_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NC_016912.1_597919_599215_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NC_016912.1_599242_599764_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NC_016912.1_600262_601273_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NC_016912.1_601347_601455_+	NA	NA|139aa|up_2|NC_016912.1_601547_601964_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NC_016912.1_601960_603622_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NC_016912.1_604010_604646_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NC_016912.1_605024_605912_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NC_016912.1_606059_607010_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NC_016912.1_607064_607784_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NC_016912.1_607767_608568_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NC_016912.1_608703_609210_+	NA	NA|239aa|down_5|NC_016912.1_609371_610088_+	NA	NA|263aa|down_6|NC_016912.1_610256_611045_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NC_016912.1_611295_611670_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NC_016912.1_612617_613547_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NC_016912.1_613741_613966_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	3	668124-668222	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAGAGCCCCTAATTAATAAATTAAAAGGGG	30	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|39aa|up_2|NC_016912.1_666151_666268_+,NA|100aa|down_4|NC_016912.1_671901_672201_+	NA|336aa|up_9|NC_016912.1_657931_658939_+	pfam01384, PHO4, Phosphate transporter family	NA|266aa|up_8|NC_016912.1_659526_660324_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|215aa|up_7|NC_016912.1_660684_661329_+	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|717aa|up_6|NC_016912.1_662025_664176_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|120aa|up_5|NC_016912.1_664321_664681_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|239aa|up_4|NC_016912.1_664870_665587_+	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|158aa|up_3|NC_016912.1_665586_666060_+	COG3542, COG3542, Uncharacterized conserved protein [Function unknown]	NA|39aa|up_2|NC_016912.1_666151_666268_+	NA	NA|215aa|up_1|NC_016912.1_666412_667057_+	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|289aa|up_0|NC_016912.1_667172_668039_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|407aa|down_0|NC_016912.1_668239_669460_+	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|163aa|down_1|NC_016912.1_669456_669945_+	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|148aa|down_2|NC_016912.1_670858_671302_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|132aa|down_3|NC_016912.1_671368_671764_+	PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional	NA|100aa|down_4|NC_016912.1_671901_672201_+	NA	NA|181aa|down_5|NC_016912.1_672280_672823_+	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|189aa|down_6|NC_016912.1_672918_673485_-	COG1611, COG1611, Predicted Rossmann fold nucleotide-binding protein [General function prediction only]	NA|153aa|down_7|NC_016912.1_673486_673945_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|292aa|down_8|NC_016912.1_674803_675679_-	PRK00281, PRK00281, undecaprenyl-diphosphate phosphatase	NA|544aa|down_9|NC_016912.1_675897_677529_+	COG4988, CydD, ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	4	810354-810435	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	810378-810411|810378-810411	NC_016912.1_1290448-1290415|NC_016912.1_1378857-1378890	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|194aa|up_9|NC_016912.1_803457_804039_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NC_016912.1_804111_804729_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NC_016912.1_804883_805378_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NC_016912.1_805776_806199_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NC_016912.1_806346_807063_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NC_016912.1_807145_807685_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NC_016912.1_807834_808155_-	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_016912.1_808298_808655_+	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_016912.1_808812_809193_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NC_016912.1_809371_810250_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NC_016912.1_810991_811378_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NC_016912.1_811370_811667_+	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_016912.1_811916_812942_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NC_016912.1_812934_813630_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NC_016912.1_813647_814469_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|NC_016912.1_814822_815017_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|NC_016912.1_815249_816101_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|NC_016912.1_816428_817190_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|NC_016912.1_817287_818595_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_9|NC_016912.1_818700_819951_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	5	859209-859491	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	9	859239-859264|859239-859264|859239-859264|859239-859264|859239-859264|859239-859264|859353-859378|859353-859378|859353-859378	NC_016912.1_767103-767078|NC_016912.1_859183-859208|NC_016912.1_730497-730522|NC_016912.1_1077380-1077405|NC_016912.1_2650033-2650008|NC_016912.1_2650089-2650064|NC_016912.1_767159-767134|NC_016912.1_767215-767190|NC_016912.1_336798-336823	NA	4	4	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NC_016912.1_848097_849594_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|NC_016912.1_849586_849928_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NC_016912.1_849927_850356_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NC_016912.1_850348_852754_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NC_016912.1_852884_853268_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NC_016912.1_853331_853925_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NC_016912.1_854340_854718_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NC_016912.1_855079_856207_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NC_016912.1_856514_857705_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NC_016912.1_857813_859058_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NC_016912.1_859560_860490_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NC_016912.1_860731_862111_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NC_016912.1_862100_863306_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NC_016912.1_863656_864988_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NC_016912.1_865312_865888_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NC_016912.1_865892_866417_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NC_016912.1_866432_867008_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NC_016912.1_867167_870644_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NC_016912.1_870644_874298_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NC_016912.1_874463_875366_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	6	992893-992980	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCTAACAACTAAAAGTTGTAAGG	25	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|45aa|down_0|NC_016912.1_992989_993124_-,NA|432aa|down_1|NC_016912.1_993275_994571_+	NA|224aa|up_9|NC_016912.1_980683_981355_+	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ	NA|730aa|up_8|NC_016912.1_981347_983537_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_7|NC_016912.1_983515_985000_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_6|NC_016912.1_984992_986021_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_5|NC_016912.1_986023_986590_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_4|NC_016912.1_986604_988083_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_3|NC_016912.1_988104_989352_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_2|NC_016912.1_989616_990423_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_1|NC_016912.1_990415_991816_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_0|NC_016912.1_991830_992406_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|45aa|down_0|NC_016912.1_992989_993124_-	NA	NA|432aa|down_1|NC_016912.1_993275_994571_+	NA	NA|391aa|down_2|NC_016912.1_994995_996168_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|NC_016912.1_996221_996764_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|NC_016912.1_996917_997184_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|NC_016912.1_997186_998905_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|NC_016912.1_999141_999375_-	cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile	NA|454aa|down_7|NC_016912.1_999572_1000934_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|NC_016912.1_1000930_1001950_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|NC_016912.1_1002082_1002745_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	7	1734113-1734323	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CAATAATGTGCAAGTTGGGGTAAGGGCCCCAACACAGANNN	41	3	27	1734151-1734171|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734210-1734229|1734268-1734285	NC_016912.1_1734092-1734112|NC_016912.1_115356-115375|NC_016912.1_258555-258574|NC_016912.1_336929-336948|NC_016912.1_761651-761632|NC_016912.1_761706-761687|NC_016912.1_767312-767293|NC_016912.1_767370-767351|NC_016912.1_767428-767409|NC_016912.1_810451-810432|NC_016912.1_878909-878890|NC_016912.1_1002895-1002876|NC_016912.1_1290316-1290335|NC_016912.1_1378989-1378970|NC_016912.1_1555353-1555334|NC_016912.1_1734037-1734056|NC_016912.1_1892346-1892327|NC_016912.1_2398779-2398798|NC_016912.1_2650127-2650108|NC_016912.1_258609-258628|NC_016912.1_774518-774499|NC_016912.1_1077342-1077361|NC_016912.1_1339661-1339642|NC_016912.1_1589319-1589300|NC_016912.1_1901695-1901676|NC_016912.1_735097-735116|NC_016912.1_1734095-1734112	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|199aa|up_9|NC_016912.1_1724632_1725229_-	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|286aa|up_8|NC_016912.1_1725257_1726115_-	PRK13668, PRK13668, hypothetical protein; Provisional	NA|104aa|up_7|NC_016912.1_1726214_1726526_-	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|NC_016912.1_1726590_1727667_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|104aa|up_5|NC_016912.1_1727753_1728065_+	COG5584, COG5584, Predicted small secreted protein [Function unknown]	NA|281aa|up_4|NC_016912.1_1728189_1729032_-	cd07728, YtnP-like_MBL-fold, Bacillus subtilis YtnP and related proteins; MBL-fold metallo hydrolase domain	NA|215aa|up_3|NC_016912.1_1729501_1730146_-	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed	NA|264aa|up_2|NC_016912.1_1730160_1730952_-	COG0510, ycfN, Thiamine kinase and related kinases [Coenzyme transport and metabolism]	NA|283aa|up_1|NC_016912.1_1731501_1732350_-	TIGR01121, D-alanine_aminotransferase, D-amino acid aminotransferase	NA|470aa|up_0|NC_016912.1_1732353_1733763_-	PRK07318, PRK07318, dipeptidase PepV; Reviewed	NA|141aa|down_0|NC_016912.1_1734626_1735049_-	pfam12732, YtxH, YtxH-like protein	NA|232aa|down_1|NC_016912.1_1735065_1735761_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|554aa|down_2|NC_016912.1_1735757_1737419_-	cd13124, MATE_SpoVB_like, Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins	NA|423aa|down_3|NC_016912.1_1737825_1739094_+	pfam03486, HI0933_like, HI0933-like protein	NA|2187aa|down_4|NC_016912.1_1739210_1745771_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|104aa|down_5|NC_016912.1_1746113_1746425_-	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein	NA|806aa|down_6|NC_016912.1_1746446_1748864_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|394aa|down_7|NC_016912.1_1749151_1750333_-	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|318aa|down_8|NC_016912.1_1750442_1751396_+	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|188aa|down_9|NC_016912.1_1751392_1751956_+	pfam06962, rRNA_methylase, Putative rRNA methylase
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	8	1890897-1890975	6	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	6	1890920-1890952|1890920-1890952|1890920-1890952|1890920-1890952|1890920-1890952|1890920-1890952	NC_016912.1_767114-767146|NC_016912.1_767170-767202|NC_016912.1_1290402-1290370|NC_016912.1_1555383-1555415|NC_016912.1_2484733-2484765|NC_016912.1_1378903-1378935	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|NC_016912.1_1885091_1885367_+,NA|129aa|up_1|NC_016912.1_1889352_1889739_-,NA|138aa|down_1|NC_016912.1_1892658_1893072_-,NA|37aa|down_2|NC_016912.1_1893100_1893211_-,NA|31aa|down_6|NC_016912.1_1896216_1896309_-	NA|419aa|up_9|NC_016912.1_1883014_1884271_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NC_016912.1_1884273_1884474_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NC_016912.1_1884620_1885085_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NC_016912.1_1885091_1885367_+	NA	NA|406aa|up_5|NC_016912.1_1885644_1886862_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NC_016912.1_1886977_1887607_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|NC_016912.1_1887596_1888640_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NC_016912.1_1888636_1889338_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NC_016912.1_1889352_1889739_-	NA	NA|253aa|up_0|NC_016912.1_1889955_1890714_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NC_016912.1_1891241_1892228_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NC_016912.1_1892658_1893072_-	NA	NA|37aa|down_2|NC_016912.1_1893100_1893211_-	NA	NA|244aa|down_3|NC_016912.1_1893296_1894028_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NC_016912.1_1894029_1895343_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NC_016912.1_1895634_1896135_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NC_016912.1_1896216_1896309_-	NA	DEDDh|185aa|down_7|NC_016912.1_1896523_1897078_+	cd06130, DNA_pol_III_epsilon_like, an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III	NA|357aa|down_8|NC_016912.1_1897145_1898216_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NC_016912.1_1898462_1898993_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	9	2082977-2083066	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_4|NC_016912.1_2077848_2078079_-,NA|364aa|up_0|NC_016912.1_2081868_2082960_+,NA|35aa|down_0|NC_016912.1_2083402_2083507_-,NA|31aa|down_2|NC_016912.1_2085618_2085711_+	NA|221aa|up_9|NC_016912.1_2072481_2073144_-	PRK00507, PRK00507, deoxyribose-phosphate aldolase; Provisional	NA|237aa|up_8|NC_016912.1_2073458_2074169_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_7|NC_016912.1_2074289_2074733_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_6|NC_016912.1_2074932_2075346_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_5|NC_016912.1_2075803_2077177_-	pfam01878, EVE, EVE domain	NA|77aa|up_4|NC_016912.1_2077848_2078079_-	NA	NA|222aa|up_3|NC_016912.1_2079483_2080149_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NC_016912.1_2080300_2080621_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NC_016912.1_2080622_2081603_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NC_016912.1_2081868_2082960_+	NA	NA|35aa|down_0|NC_016912.1_2083402_2083507_-	NA	NA|379aa|down_1|NC_016912.1_2084193_2085330_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NC_016912.1_2085618_2085711_+	NA	NA|286aa|down_3|NC_016912.1_2086415_2087273_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NC_016912.1_2087340_2088123_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NC_016912.1_2088354_2090160_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NC_016912.1_2090840_2092379_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NC_016912.1_2092413_2094546_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NC_016912.1_2094557_2094992_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NC_016912.1_2094991_2096098_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_000245495.1_ASM24549v1	NC_016912	Staphylococcus aureus subsp. aureus VC40, complete sequence	10	2206999-2207192	3	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	14	2207022-2207054|2207022-2207054|2207022-2207054|2207022-2207054|2207022-2207054|2207078-2207113|2207078-2207113|2207078-2207113|2207078-2207113|2207137-2207169|2207137-2207169|2207137-2207169|2207137-2207169|2207137-2207169	NC_016912.1_767114-767146|NC_016912.1_767170-767202|NC_016912.1_1290402-1290370|NC_016912.1_1378903-1378935|NC_016912.1_2484733-2484765|NC_016912.1_1077373-1077338|NC_016912.1_1734068-1734033|NC_016912.1_1555322-1555357|NC_016912.1_1901664-1901699|NC_016912.1_767058-767090|NC_016912.1_767114-767146|NC_016912.1_767170-767202|NC_016912.1_1290402-1290370|NC_016912.1_2484733-2484765	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NC_016912.1_2197524_2197689_+,NA|106aa|up_8|NC_016912.1_2197933_2198251_+,NA|84aa|up_5|NC_016912.1_2203375_2203627_+,NA|57aa|up_0|NC_016912.1_2206768_2206939_+,NA	NA|55aa|up_9|NC_016912.1_2197524_2197689_+	NA	NA|106aa|up_8|NC_016912.1_2197933_2198251_+	NA	NA|1056aa|up_7|NC_016912.1_2198437_2201605_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NC_016912.1_2201721_2202987_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NC_016912.1_2203375_2203627_+	NA	NA|255aa|up_4|NC_016912.1_2203618_2204383_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NC_016912.1_2204544_2204985_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NC_016912.1_2204977_2206189_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NC_016912.1_2206292_2206643_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NC_016912.1_2206768_2206939_+	NA	NA|341aa|down_0|NC_016912.1_2207333_2208356_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NC_016912.1_2208375_2208975_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NC_016912.1_2208981_2209215_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NC_016912.1_2209220_2209667_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NC_016912.1_2209680_2210166_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NC_016912.1_2210162_2211422_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NC_016912.1_2211484_2211979_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NC_016912.1_2211980_2212487_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NC_016912.1_2212517_2213522_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NC_016912.1_2213691_2214297_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
