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_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	1	75629-75779	1	CRISPRCasFinder	no	TnsE_C,csa3	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Type I-A	TGCATAAGAGCCCCTTACAACTAAAGTT	28	0	0	NA	NA	NA	2	2	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|31aa|up_2|NZ_LT992469.1_73828_73921_-,NA|53aa|up_1|NZ_LT992469.1_74356_74515_-,NA|35aa|up_0|NZ_LT992469.1_75194_75299_+,NA|364aa|down_0|NZ_LT992469.1_75796_76888_-,NA|77aa|down_5|NZ_LT992469.1_80675_80906_+	TnsE_C|135aa|up_9|NZ_LT992469.1_67589_67994_+	pfam18623, TnsE_C, TnsE C-terminal domain	NA|97aa|up_8|NZ_LT992469.1_68118_68409_+	pfam11867, DUF3387, Domain of unknown function (DUF3387)	NA|490aa|up_7|NZ_LT992469.1_68468_69938_+	pfam18185, STALD, Sir2- and TIR-associating SLOG family	NA|345aa|up_6|NZ_LT992469.1_70031_71066_+	pfam13676, TIR_2, TIR domain	NA|203aa|up_5|NZ_LT992469.1_71093_71702_+	pfam08937, DUF1863, MTH538 TIR-like domain (DUF1863)	NA|261aa|up_4|NZ_LT992469.1_71991_72774_+	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|286aa|up_3|NZ_LT992469.1_72841_73699_+	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|31aa|up_2|NZ_LT992469.1_73828_73921_-	NA	NA|53aa|up_1|NZ_LT992469.1_74356_74515_-	NA	NA|35aa|up_0|NZ_LT992469.1_75194_75299_+	NA	NA|364aa|down_0|NZ_LT992469.1_75796_76888_-	NA	NA|327aa|down_1|NZ_LT992469.1_77153_78134_-	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	csa3|107aa|down_2|NZ_LT992469.1_78135_78456_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|222aa|down_3|NZ_LT992469.1_78607_79273_+	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	NA|313aa|down_4|NZ_LT992469.1_79706_80645_+	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|77aa|down_5|NZ_LT992469.1_80675_80906_+	NA	NA|458aa|down_6|NZ_LT992469.1_81577_82951_+	pfam01878, EVE, EVE domain	NA|138aa|down_7|NZ_LT992469.1_83408_83822_+	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|148aa|down_8|NZ_LT992469.1_84021_84465_+	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|237aa|down_9|NZ_LT992469.1_84585_85296_-	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	2	131198-131410	2	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	CATCAAAGTAGCATGGCATGACACCAAGCTTCCACAACAGCACATCA	47	0	0	NA	NA	NA	2	2	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|107aa|up_0|NZ_LT992469.1_130843_131164_-,NA|46aa|down_4|NZ_LT992469.1_134410_134548_+	NA|147aa|up_9|NZ_LT992469.1_122316_122757_+	PRK00006, fabZ, 3-hydroxyacyl-ACP dehydratase FabZ	NA|147aa|up_8|NZ_LT992469.1_122813_123254_-	pfam14183, YwpF, YwpF-like protein	NA|132aa|up_7|NZ_LT992469.1_123447_123843_+	pfam00436, SSB, Single-strand binding protein family	NA|232aa|up_6|NZ_LT992469.1_124231_124927_+	pfam06737, Transglycosylas, Transglycosylase-like domain	NA|230aa|up_5|NZ_LT992469.1_125313_126003_+	TIGR04306, salvage_TenA, thiaminase II	NA|277aa|up_4|NZ_LT992469.1_125995_126826_+	PRK06427, PRK06427, bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed	NA|264aa|up_3|NZ_LT992469.1_126809_127601_+	PRK09355, PRK09355, hydroxyethylthiazole kinase; Validated	NA|214aa|up_2|NZ_LT992469.1_127602_128244_+	PRK00043, thiE, thiamine phosphate synthase	NA|291aa|up_1|NZ_LT992469.1_128329_129202_+	PRK02463, PRK02463, OxaA-like protein precursor; Provisional	NA|107aa|up_0|NZ_LT992469.1_130843_131164_-	NA	NA|216aa|down_0|NZ_LT992469.1_131443_132091_-	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only]	NA|495aa|down_1|NZ_LT992469.1_132118_133603_-	TIGR04265, bac_cardiolipin, cardiolipin synthase	NA|98aa|down_2|NZ_LT992469.1_133768_134062_+	cd10152, SaCsoR-like_DUF156, Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156	NA|70aa|down_3|NZ_LT992469.1_134073_134283_+	cd00371, HMA, Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones	NA|46aa|down_4|NZ_LT992469.1_134410_134548_+	NA	NA|401aa|down_5|NZ_LT992469.1_134811_136014_-	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|357aa|down_6|NZ_LT992469.1_136331_137402_+	PRK01966, ddl, D-alanine--D-alanine ligase	NA|452aa|down_7|NZ_LT992469.1_137416_138772_+	COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]	NA|507aa|down_8|NZ_LT992469.1_139287_140808_+	COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	NA|232aa|down_9|NZ_LT992469.1_141160_141856_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	3	491871-491953	3	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	GTAAGCTGACTTTTTCGTCAGCTTC	25	0	0	NA	NA	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA,NA	NA|383aa|up_9|NZ_LT992469.1_481394_482543_+	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]	NA|408aa|up_8|NZ_LT992469.1_482542_483766_+	PRK01565, PRK01565, thiamine biosynthesis protein ThiI; Provisional	NA|257aa|up_7|NZ_LT992469.1_483809_484580_+	PRK10621, PRK10621, hypothetical protein; Provisional	NA|165aa|up_6|NZ_LT992469.1_484677_485172_+	PRK00522, tpx, thiol peroxidase	NA|316aa|up_5|NZ_LT992469.1_485294_486242_+	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|401aa|up_4|NZ_LT992469.1_486329_487532_+	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed	NA|167aa|up_3|NZ_LT992469.1_487778_488279_-	pfam00582, Usp, Universal stress protein family	NA|373aa|up_2|NZ_LT992469.1_488419_489538_+	cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic domains	NA|352aa|up_1|NZ_LT992469.1_489853_490909_-	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|230aa|up_0|NZ_LT992469.1_491083_491773_+	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|138aa|down_0|NZ_LT992469.1_492278_492692_-	pfam00582, Usp, Universal stress protein family	NA|433aa|down_1|NZ_LT992469.1_492896_494195_+	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|314aa|down_2|NZ_LT992469.1_494564_495506_+	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|1066aa|down_3|NZ_LT992469.1_495526_498724_+	COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]	NA|410aa|down_4|NZ_LT992469.1_499172_500402_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|286aa|down_5|NZ_LT992469.1_500596_501454_+	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|315aa|down_6|NZ_LT992469.1_501453_502398_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|323aa|down_7|NZ_LT992469.1_502666_503635_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|586aa|down_8|NZ_LT992469.1_503656_505414_+	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|454aa|down_9|NZ_LT992469.1_505757_507119_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	4	1417438-1417518	4	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	GGGAGTGGGAGAGAAATGATAAAGA	25	1	1	1417463-1417493	NZ_LT992469.1_1472446-1472416	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|105aa|up_7|NZ_LT992469.1_1409516_1409831_+,NA	NA|356aa|up_9|NZ_LT992469.1_1407026_1408094_-	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]	NA|347aa|up_8|NZ_LT992469.1_1408107_1409148_-	COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]	NA|105aa|up_7|NZ_LT992469.1_1409516_1409831_+	NA	NA|466aa|up_6|NZ_LT992469.1_1410162_1411560_-	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|155aa|up_5|NZ_LT992469.1_1411710_1412175_-	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family	NA|417aa|up_4|NZ_LT992469.1_1412164_1413415_-	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|436aa|up_3|NZ_LT992469.1_1413520_1414828_-	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|254aa|up_2|NZ_LT992469.1_1414926_1415688_-	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|284aa|up_1|NZ_LT992469.1_1416015_1416867_+	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|65aa|up_0|NZ_LT992469.1_1417100_1417295_-	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|274aa|down_0|NZ_LT992469.1_1418102_1418924_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|232aa|down_1|NZ_LT992469.1_1418941_1419637_-	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|342aa|down_2|NZ_LT992469.1_1419629_1420655_-	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|99aa|down_3|NZ_LT992469.1_1420904_1421201_-	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|129aa|down_4|NZ_LT992469.1_1421193_1421580_-	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|293aa|down_5|NZ_LT992469.1_1422281_1423160_-	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|127aa|down_6|NZ_LT992469.1_1423339_1423720_-	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|119aa|down_7|NZ_LT992469.1_1423877_1424234_-	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|107aa|down_8|NZ_LT992469.1_1424377_1424698_+	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|180aa|down_9|NZ_LT992469.1_1424847_1425387_-	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	5	1629048-1629156	5	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	TTTATGCAGTTGTGCGGTAGCATCCAACTGCGTTCCTTT	39	0	0	NA	NA	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|239aa|up_5|NZ_LT992469.1_1623929_1624646_-,NA|169aa|up_4|NZ_LT992469.1_1624807_1625314_-,NA	NA|75aa|up_9|NZ_LT992469.1_1620052_1620277_+	pfam11148, DUF2922, Protein of unknown function (DUF2922)	NA|310aa|up_8|NZ_LT992469.1_1620469_1621399_+	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|125aa|up_7|NZ_LT992469.1_1622346_1622721_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|263aa|up_6|NZ_LT992469.1_1622972_1623761_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|239aa|up_5|NZ_LT992469.1_1623929_1624646_-	NA	NA|169aa|up_4|NZ_LT992469.1_1624807_1625314_-	NA	NA|267aa|up_3|NZ_LT992469.1_1625449_1626250_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|240aa|up_2|NZ_LT992469.1_1626233_1626953_-	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|317aa|up_1|NZ_LT992469.1_1627007_1627958_-	pfam01032, FecCD, FecCD transport family	NA|296aa|up_0|NZ_LT992469.1_1628108_1628996_-	cd01143, YvrC, Periplasmic binding protein YvrC	NA|212aa|down_0|NZ_LT992469.1_1629325_1629961_-	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|554aa|down_1|NZ_LT992469.1_1630445_1632107_-	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|139aa|down_2|NZ_LT992469.1_1632103_1632520_-	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|337aa|down_3|NZ_LT992469.1_1632795_1633806_-	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|174aa|down_4|NZ_LT992469.1_1634304_1634826_-	pfam08741, YwhD, YwhD family	NA|432aa|down_5|NZ_LT992469.1_1634853_1636149_-	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|159aa|down_6|NZ_LT992469.1_1636188_1636665_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|179aa|down_7|NZ_LT992469.1_1636834_1637371_-	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|313aa|down_8|NZ_LT992469.1_1637816_1638755_-	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|209aa|down_9|NZ_LT992469.1_1639024_1639651_-	pfam04276, DUF443, Protein of unknown function (DUF443)
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	6	2535795-2535928	1	PILER-CR	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	TATTGAAGAAGATACAA	17	0	0	NA	NA	NA	2	2	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA,NA|103aa|down_1|NZ_LT992469.1_2541062_2541371_-,NA|89aa|down_2|NZ_LT992469.1_2541514_2541781_-	NA|388aa|up_9|NZ_LT992469.1_2520108_2521272_+	cd17474, MFS_YfmO_like, Bacillus subtilis multidrug efflux protein YfmO and similar transporters of the Major Facilitator Superfamily	NA|204aa|up_8|NZ_LT992469.1_2521369_2521981_-	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|426aa|up_7|NZ_LT992469.1_2522527_2523805_+	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|608aa|up_6|NZ_LT992469.1_2524716_2526540_+	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|139aa|up_5|NZ_LT992469.1_2526678_2527095_+	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|231aa|up_4|NZ_LT992469.1_2527325_2528018_+	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|255aa|up_3|NZ_LT992469.1_2528182_2528947_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|226aa|up_2|NZ_LT992469.1_2529103_2529781_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|518aa|up_1|NZ_LT992469.1_2529805_2531359_+	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|453aa|up_0|NZ_LT992469.1_2531475_2532834_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|289aa|down_0|NZ_LT992469.1_2540070_2540937_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|103aa|down_1|NZ_LT992469.1_2541062_2541371_-	NA	NA|89aa|down_2|NZ_LT992469.1_2541514_2541781_-	NA	NA|584aa|down_3|NZ_LT992469.1_2542064_2543816_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|398aa|down_4|NZ_LT992469.1_2543891_2545085_-	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|310aa|down_5|NZ_LT992469.1_2545180_2546110_+	pfam09019, EcoRII-C, EcoRII C terminal	NA|258aa|down_6|NZ_LT992469.1_2546352_2547126_+	pfam04507, DUF576, Csa1 family	NA|255aa|down_7|NZ_LT992469.1_2547237_2548002_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_8|NZ_LT992469.1_2548249_2549035_+	pfam04507, DUF576, Csa1 family	NA|452aa|down_9|NZ_LT992469.1_2549031_2550387_+	cd00519, Lipase_3, Lipase (class 3)
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	7	2539339-2539472	2	PILER-CR	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	TATTGAAGAAGATACAA	17	0	0	NA	NA	NA	2	2	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA,NA|103aa|down_1|NZ_LT992469.1_2541062_2541371_-,NA|89aa|down_2|NZ_LT992469.1_2541514_2541781_-	NA|204aa|up_9|NZ_LT992469.1_2521369_2521981_-	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|426aa|up_8|NZ_LT992469.1_2522527_2523805_+	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|608aa|up_7|NZ_LT992469.1_2524716_2526540_+	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|139aa|up_6|NZ_LT992469.1_2526678_2527095_+	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|231aa|up_5|NZ_LT992469.1_2527325_2528018_+	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|255aa|up_4|NZ_LT992469.1_2528182_2528947_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|226aa|up_3|NZ_LT992469.1_2529103_2529781_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|518aa|up_2|NZ_LT992469.1_2529805_2531359_+	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|453aa|up_1|NZ_LT992469.1_2531475_2532834_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|1018aa|up_0|NZ_LT992469.1_2533302_2536356_+	pfam10425, SdrG_C_C, C-terminus of bacterial fibrinogen-binding adhesin	NA|289aa|down_0|NZ_LT992469.1_2540070_2540937_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|103aa|down_1|NZ_LT992469.1_2541062_2541371_-	NA	NA|89aa|down_2|NZ_LT992469.1_2541514_2541781_-	NA	NA|584aa|down_3|NZ_LT992469.1_2542064_2543816_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|398aa|down_4|NZ_LT992469.1_2543891_2545085_-	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|310aa|down_5|NZ_LT992469.1_2545180_2546110_+	pfam09019, EcoRII-C, EcoRII C terminal	NA|258aa|down_6|NZ_LT992469.1_2546352_2547126_+	pfam04507, DUF576, Csa1 family	NA|255aa|down_7|NZ_LT992469.1_2547237_2548002_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_8|NZ_LT992469.1_2548249_2549035_+	pfam04507, DUF576, Csa1 family	NA|452aa|down_9|NZ_LT992469.1_2549031_2550387_+	cd00519, Lipase_3, Lipase (class 3)
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	8	2563936-2564030	6	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	TTGCTTCGCAACAACTGCATAAGAGCCT	28	0	0	NA	NA	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|105aa|up_8|NZ_LT992469.1_2555777_2556092_-,NA|121aa|up_0|NZ_LT992469.1_2562904_2563267_+,NA|249aa|down_9|NZ_LT992469.1_2573697_2574444_-	NA|140aa|up_9|NZ_LT992469.1_2553481_2553901_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|105aa|up_8|NZ_LT992469.1_2555777_2556092_-	NA	NA|403aa|up_7|NZ_LT992469.1_2556097_2557306_-	cd07657, F-BAR_Fes_Fer, The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases	NA|128aa|up_6|NZ_LT992469.1_2557372_2557756_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|137aa|up_5|NZ_LT992469.1_2558210_2558621_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|133aa|up_4|NZ_LT992469.1_2558647_2559046_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|141aa|up_3|NZ_LT992469.1_2559517_2559940_+	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|513aa|up_2|NZ_LT992469.1_2560051_2561590_-	pfam03806, ABG_transport, AbgT putative transporter family	NA|273aa|up_1|NZ_LT992469.1_2561823_2562642_+	PRK08589, PRK08589, SDR family oxidoreductase	NA|121aa|up_0|NZ_LT992469.1_2562904_2563267_+	NA	NA|274aa|down_0|NZ_LT992469.1_2564215_2565037_+	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|273aa|down_1|NZ_LT992469.1_2565047_2565866_+	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|434aa|down_2|NZ_LT992469.1_2565858_2567160_+	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|533aa|down_3|NZ_LT992469.1_2567302_2568901_+	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|312aa|down_4|NZ_LT992469.1_2568913_2569849_+	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|290aa|down_5|NZ_LT992469.1_2569845_2570715_+	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|272aa|down_6|NZ_LT992469.1_2570711_2571527_+	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|250aa|down_7|NZ_LT992469.1_2571519_2572269_+	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|398aa|down_8|NZ_LT992469.1_2572280_2573474_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|249aa|down_9|NZ_LT992469.1_2573697_2574444_-	NA
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	9	2608284-2608362	7	CRISPRCasFinder	no		TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Orphan	TGCAAGTTGGCGGGGCCCCAACA	23	1	1	2608307-2608339	NZ_LT992469.1_1991151-1991119	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|220aa|up_3|NZ_LT992469.1_2605208_2605868_-,NA|36aa|up_0|NZ_LT992469.1_2607856_2607964_+,NA|56aa|down_2|NZ_LT992469.1_2612419_2612587_+	NA|693aa|up_9|NZ_LT992469.1_2597663_2599742_-	COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]	NA|470aa|up_8|NZ_LT992469.1_2599879_2601289_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|269aa|up_7|NZ_LT992469.1_2601575_2602382_+	TIGR03729, acc_ester, putative phosphoesterase	NA|219aa|up_6|NZ_LT992469.1_2602444_2603101_-	COG4990, COG4990, Uncharacterized protein conserved in bacteria [Function unknown]	NA|158aa|up_5|NZ_LT992469.1_2603213_2603687_+	COG3708, COG3708, Uncharacterized protein conserved in bacteria [Function unknown]	NA|404aa|up_4|NZ_LT992469.1_2603809_2605021_-	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|220aa|up_3|NZ_LT992469.1_2605208_2605868_-	NA	NA|381aa|up_2|NZ_LT992469.1_2605927_2607070_-	TIGR00045, Glycerate_kinase, glycerate kinase	NA|129aa|up_1|NZ_LT992469.1_2607336_2607723_+	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|36aa|up_0|NZ_LT992469.1_2607856_2607964_+	NA	NA|588aa|down_0|NZ_LT992469.1_2608667_2610431_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|578aa|down_1|NZ_LT992469.1_2610455_2612189_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|56aa|down_2|NZ_LT992469.1_2612419_2612587_+	NA	NA|229aa|down_3|NZ_LT992469.1_2612641_2613328_+	COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism]	NA|453aa|down_4|NZ_LT992469.1_2613305_2614664_+	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase	NA|336aa|down_5|NZ_LT992469.1_2614665_2615673_+	PRK06256, PRK06256, biotin synthase; Validated	NA|372aa|down_6|NZ_LT992469.1_2615650_2616766_+	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|231aa|down_7|NZ_LT992469.1_2616776_2617469_+	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|156aa|down_8|NZ_LT992469.1_2617479_2617947_+	pfam06177, QueT, QueT transporter	NA|326aa|down_9|NZ_LT992469.1_2617998_2618976_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin
GCF_900324335.1_15_LA_305	NZ_LT992469	Staphylococcus aureus isolate 15_LA_305 chromosome I	10	2740224-2740309	8	CRISPRCasFinder	no	WYL	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	6	2740254-2740279|2740254-2740279|2740254-2740279|2740254-2740279|2740254-2740279|2740254-2740279	NZ_LT992469.1_619624-619599|NZ_LT992469.1_1421861-1421836|NZ_LT992469.1_120273-120298|NZ_LT992469.1_935829-935854|NZ_LT992469.1_1372756-1372781|NZ_LT992469.1_1417691-1417716	NA	1	1	Orphan	TnsE_C,csa3,DEDDh,cas3,DinG,WYL	NA|110aa|up_8|NZ_LT992469.1_2730621_2730951_-,NA|78aa|up_1|NZ_LT992469.1_2739039_2739273_+,NA|65aa|down_6|NZ_LT992469.1_2747369_2747564_+	NA|291aa|up_9|NZ_LT992469.1_2729304_2730177_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|110aa|up_8|NZ_LT992469.1_2730621_2730951_-	NA	NA|246aa|up_7|NZ_LT992469.1_2730999_2731737_+	pfam02517, Abi, CAAX protease self-immunity	WYL|231aa|up_6|NZ_LT992469.1_2731761_2732454_-	COG2378, COG2378, Predicted transcriptional regulator [Transcription]	NA|266aa|up_5|NZ_LT992469.1_2732838_2733636_+	COG0483, SuhB, Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]	NA|316aa|up_4|NZ_LT992469.1_2733768_2734716_+	PRK09379, PRK09379, LytR family transcriptional regulator	NA|985aa|up_3|NZ_LT992469.1_2735317_2738272_+	COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General function prediction only]	NA|158aa|up_2|NZ_LT992469.1_2738271_2738745_+	COG2427, COG2427, Uncharacterized conserved protein [Function unknown]	NA|78aa|up_1|NZ_LT992469.1_2739039_2739273_+	NA	NA|259aa|up_0|NZ_LT992469.1_2739294_2740071_+	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|375aa|down_0|NZ_LT992469.1_2740679_2741804_+	PRK06753, PRK06753, hypothetical protein; Provisional	NA|318aa|down_1|NZ_LT992469.1_2741895_2742849_-	cd12178, 2-Hacid_dh_13, Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains	NA|167aa|down_2|NZ_LT992469.1_2743211_2743712_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|141aa|down_3|NZ_LT992469.1_2743948_2744371_-	COG3296, COG3296, Uncharacterized protein conserved in bacteria [Function unknown]	NA|361aa|down_4|NZ_LT992469.1_2744618_2745701_+	pfam02317, Octopine_DH, NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain	NA|467aa|down_5|NZ_LT992469.1_2745795_2747196_+	TIGR00931, Uncharacterized_Na+/H+_antiporter_HI_1107, Na+/H+ antiporter NhaC	NA|65aa|down_6|NZ_LT992469.1_2747369_2747564_+	NA	NA|270aa|down_7|NZ_LT992469.1_2747632_2748442_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|652aa|down_8|NZ_LT992469.1_2749051_2751007_+	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|248aa|down_9|NZ_LT992469.1_2751032_2751776_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family
