assembly_id	genome_id	genome_def	crispr_array_locus_merge	crispr_array_location_merge	crispr_locus_id	crispr_pred_method	array_in_prot	prot_within_array_20000	prot_in_genome	crispr_type_by_cas_prot	consensus_repeat	repeat_length	self-targeting_spacer_number	self-targeting_target_number	spacer_location	protospacer_location	repeat_type	spacer_locus_num	spacer_num	correct_crispr_type	genome_cas_prots	unknown_protein_around_crispr	L10	L10_domain	L9	L9_domain	L8	L8_domain	L7	L7_domain	L6	L6_domain	L5	L5_domain	L4	L4_domain	L3	L3_domain	L2	L2_domain	L1	L1_domain	R1	R1_domain	R2	R2_domain	R3	R3_domain	R4	R4_domain	R5	R5_domain	R6	R6_domain	R7	R7_domain	R8	R8_domain	R9	R9_domain	R10	R10_domain
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	1	144343-144424	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	2	144367-144400|144367-144400	LR134139.1_1426744-1426711|LR134139.1_1204911-1204944	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|402aa|up_9|LR134139.1_133488_134694_+,NA|68aa|down_0|LR134139.1_144487_144691_-	NA|402aa|up_9|LR134139.1_133488_134694_+	NA	NA|402aa|up_8|LR134139.1_134694_135900_+	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|186aa|up_7|LR134139.1_135910_136468_+	COG2148, WcaJ, Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]	NA|296aa|up_6|LR134139.1_136467_137355_+	cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs	NA|421aa|up_5|LR134139.1_137408_138671_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|382aa|up_4|LR134139.1_138747_139893_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|109aa|up_3|LR134139.1_139957_140284_-	PRK13313, PRK13313, staphylobilin-forming heme oxygenase IsdI	NA|128aa|up_2|LR134139.1_140290_140674_-	pfam04304, DUF454, Protein of unknown function (DUF454)	NA|496aa|up_1|LR134139.1_141100_142588_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|320aa|up_0|LR134139.1_143234_144194_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|68aa|down_0|LR134139.1_144487_144691_-	NA	NA|171aa|down_1|LR134139.1_144869_145382_+	pfam14026, DUF4242, Protein of unknown function (DUF4242)	NA|247aa|down_2|LR134139.1_145723_146464_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|325aa|down_3|LR134139.1_146477_147452_+	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|LR134139.1_147448_148210_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|345aa|down_5|LR134139.1_148219_149254_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|120aa|down_6|LR134139.1_149470_149830_+	COG5609, COG5609, Uncharacterized conserved protein [Function unknown]	NA|392aa|down_7|LR134139.1_149853_151029_+	PRK07574, PRK07574, NAD-dependent formate dehydrogenase	NA|417aa|down_8|LR134139.1_151414_152665_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|2392aa|down_9|LR134139.1_153111_160287_+	PRK12467, PRK12467, peptide synthase; Provisional
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	2	267588-267728	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGGCCCCAACACAAAGAATTTCGAAAAGAAATTCTACAGGTAATGCAAGTTGG	53	1	9	267641-267675|267641-267675|267641-267675|267641-267675|267641-267675|267641-267675|267641-267675|267641-267675|267641-267675	LR134139.1_838701-838667|LR134139.1_838757-838723|LR134139.1_1204990-1205024|LR134139.1_2281993-2281959|LR134139.1_2446507-2446473|LR134139.1_2717725-2717691|LR134139.1_758179-758213|LR134139.1_1116933-1116967|LR134139.1_2316227-2316261	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|563aa|up_9|LR134139.1_256054_257743_+	pfam04464, Glyphos_transf, CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase	NA|574aa|up_8|LR134139.1_257775_259497_+	pfam18674, TarS_C1, TarS beta-glycosyltransferase C-terminal domain 1	NA|225aa|up_7|LR134139.1_259640_260315_+	PRK13276, PRK13276, iron-sulfur cluster repair di-iron protein ScdA	NA|585aa|up_6|LR134139.1_260559_262314_+	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms]	NA|247aa|up_5|LR134139.1_262316_263057_+	PRK14084, PRK14084, DNA-binding response regulator	NA|146aa|up_4|LR134139.1_263175_263613_+	PRK04125, PRK04125, antiholin-like protein LrgA	NA|234aa|up_3|LR134139.1_263605_264307_+	PRK04288, PRK04288, antiholin-like protein LrgB; Provisional	NA|235aa|up_2|LR134139.1_264414_265119_-	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|264aa|up_1|LR134139.1_265267_266059_+	COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate transport and metabolism]	NA|479aa|up_0|LR134139.1_266074_267511_+	PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed	NA|254aa|down_0|LR134139.1_267978_268740_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|305aa|down_1|LR134139.1_268990_269905_-	TIGR02152, Putative_ribokinase, ribokinase	NA|135aa|down_2|LR134139.1_269932_270337_-	PRK11797, PRK11797, D-ribose pyranase; Provisional	NA|294aa|down_3|LR134139.1_270351_271233_-	pfam06800, Sugar_transport, Sugar transport protein	NA|333aa|down_4|LR134139.1_271464_272463_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|459aa|down_5|LR134139.1_272946_274323_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|331aa|down_6|LR134139.1_274556_275549_+	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane]	NA|317aa|down_7|LR134139.1_275874_276825_+	pfam01551, Peptidase_M23, Peptidase family M23	NA|220aa|down_8|LR134139.1_276876_277536_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|307aa|down_9|LR134139.1_277549_278470_-	pfam12698, ABC2_membrane_3, ABC-2 family transporter protein
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	3	695736-695834	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,NA|230aa|down_2|LR134139.1_697655_698345_-,NA|130aa|down_4|LR134139.1_698981_699371_+,NA|100aa|down_5|LR134139.1_699508_699808_+	NA|206aa|up_9|LR134139.1_684909_685527_+	COG1392, COG1392, Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]	NA|336aa|up_8|LR134139.1_685542_686550_+	pfam01384, PHO4, Phosphate transporter family	NA|266aa|up_7|LR134139.1_687138_687936_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|215aa|up_6|LR134139.1_688296_688941_+	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|717aa|up_5|LR134139.1_689637_691788_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|142aa|up_4|LR134139.1_691867_692293_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|239aa|up_3|LR134139.1_692482_693199_+	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|158aa|up_2|LR134139.1_693198_693672_+	COG3542, COG3542, Uncharacterized conserved protein [Function unknown]	NA|215aa|up_1|LR134139.1_694024_694669_+	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|289aa|up_0|LR134139.1_694784_695651_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|407aa|down_0|LR134139.1_695851_697072_+	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|163aa|down_1|LR134139.1_697068_697557_+	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|230aa|down_2|LR134139.1_697655_698345_-	NA	NA|148aa|down_3|LR134139.1_698471_698915_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|130aa|down_4|LR134139.1_698981_699371_+	NA	NA|100aa|down_5|LR134139.1_699508_699808_+	NA	NA|181aa|down_6|LR134139.1_699887_700430_+	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|189aa|down_7|LR134139.1_700525_701092_-	COG1611, COG1611, Predicted Rossmann fold nucleotide-binding protein [General function prediction only]	NA|153aa|down_8|LR134139.1_701093_701552_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|228aa|down_9|LR134139.1_701554_702238_-	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	4	748629-748711	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|94aa|up_1|LR134139.1_747516_747798_-,NA	NA|237aa|up_9|LR134139.1_735580_736291_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_8|LR134139.1_736274_737279_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_7|LR134139.1_737752_739693_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|626aa|up_6|LR134139.1_739968_741846_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_5|LR134139.1_741857_743639_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_4|LR134139.1_743860_744838_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_3|LR134139.1_744830_746345_+	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|353aa|up_2|LR134139.1_746584_747643_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|94aa|up_1|LR134139.1_747516_747798_-	NA	NA|181aa|up_0|LR134139.1_747937_748480_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|LR134139.1_749159_750077_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|502aa|down_1|LR134139.1_750345_751851_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_2|LR134139.1_752191_752692_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_3|LR134139.1_752711_753578_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|133aa|down_4|LR134139.1_754378_754777_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_5|LR134139.1_754739_756845_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_6|LR134139.1_756962_757934_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|338aa|down_7|LR134139.1_758599_759613_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|319aa|down_8|LR134139.1_759599_760556_+	COG4605, CeuC, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|254aa|down_9|LR134139.1_760552_761314_+	COG4604, CeuD, ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	5	795146-795228	5	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	CCAACTTGCATTGTCTGTAGAAATT	25	1	1	795171-795203	LR134139.1_1930070-1930102	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|LR134139.1_782384_783224_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|LR134139.1_783397_784048_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|LR134139.1_784044_784281_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|LR134139.1_784549_786535_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|LR134139.1_786542_789389_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|LR134139.1_790008_790941_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|LR134139.1_790946_791786_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|LR134139.1_791793_792279_+	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins	NA|480aa|up_1|LR134139.1_792286_793726_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|LR134139.1_793792_794728_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|LR134139.1_795493_796405_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|LR134139.1_796401_797397_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|LR134139.1_797507_798452_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|LR134139.1_799024_799612_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|290aa|down_4|LR134139.1_799854_800724_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|LR134139.1_801459_802089_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|LR134139.1_802792_803806_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|LR134139.1_803858_804869_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|LR134139.1_805007_806198_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|LR134139.1_806319_807081_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	6	838285-838366	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	838309-838342|838309-838342	LR134139.1_1426711-1426744|LR134139.1_1204944-1204911	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|38aa|up_1|LR134139.1_837187_837301_+,NA	NA|206aa|up_9|LR134139.1_832042_832660_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_8|LR134139.1_832814_833309_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|LR134139.1_833707_834130_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|LR134139.1_834277_834994_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|LR134139.1_835076_835616_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|LR134139.1_835765_836086_-	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|LR134139.1_836229_836586_+	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|LR134139.1_836743_837124_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|LR134139.1_837187_837301_+	NA	NA|293aa|up_0|LR134139.1_837302_838181_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|130aa|down_0|LR134139.1_839086_839476_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|LR134139.1_839468_839765_+	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|LR134139.1_840014_841040_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|LR134139.1_841032_841728_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|LR134139.1_841745_842567_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|LR134139.1_842709_843930_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|LR134139.1_844017_844746_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|243aa|down_7|LR134139.1_844769_845498_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|245aa|down_8|LR134139.1_845672_846407_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|71aa|down_9|LR134139.1_846556_846769_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	7	1120820-1121006	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGCGGGGCCCCAACATAGA	19	3	38	1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120839-1120875|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120895-1120931|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987|1120951-1120987	LR134139.1_2281943-2281907|LR134139.1_1337712-1337748|LR134139.1_2471800-2471836|LR134139.1_144327-144363|LR134139.1_789749-789713|LR134139.1_838382-838346|LR134139.1_902590-902626|LR134139.1_1601489-1601453|LR134139.1_1939432-1939396|LR134139.1_2603284-2603320|LR134139.1_347529-347565|LR134139.1_802395-802359|LR134139.1_1018623-1018587|LR134139.1_1601547-1601511|LR134139.1_1928740-1928704|LR134139.1_2316221-2316257|LR134139.1_1426785-1426749|LR134139.1_2281999-2281963|LR134139.1_2552869-2552833|LR134139.1_838651-838615|LR134139.1_838707-838671|LR134139.1_838763-838727|LR134139.1_1121007-1121043|LR134139.1_1204984-1205020|LR134139.1_1205040-1205076|LR134139.1_2446513-2446477|LR134139.1_748617-748653|LR134139.1_1426727-1426691|LR134139.1_1461917-1461953|LR134139.1_1461973-1462009|LR134139.1_1930141-1930105|LR134139.1_2316277-2316313|LR134139.1_2717843-2717807|LR134139.1_795242-795206|LR134139.1_1204928-1204964|LR134139.1_2552813-2552777|LR134139.1_2717787-2717751|LR134139.1_1721855-1721891	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|169aa|up_7|LR134139.1_1114828_1115335_+,NA|62aa|up_4|LR134139.1_1117187_1117373_-,NA|78aa|up_3|LR134139.1_1117994_1118228_-,NA|49aa|up_1|LR134139.1_1120336_1120483_+,NA|66aa|up_0|LR134139.1_1120466_1120664_+,NA|76aa|down_7|LR134139.1_1128019_1128247_+	NA|110aa|up_9|LR134139.1_1113057_1113387_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|134aa|up_8|LR134139.1_1113756_1114158_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|LR134139.1_1114828_1115335_+	NA	NA|166aa|up_6|LR134139.1_1115593_1116091_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|LR134139.1_1116241_1116592_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|LR134139.1_1117187_1117373_-	NA	NA|78aa|up_3|LR134139.1_1117994_1118228_-	NA	NA|320aa|up_2|LR134139.1_1118704_1119664_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|LR134139.1_1120336_1120483_+	NA	NA|66aa|up_0|LR134139.1_1120466_1120664_+	NA	NA|131aa|down_0|LR134139.1_1121220_1121613_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|101aa|down_1|LR134139.1_1121634_1121937_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_2|LR134139.1_1122044_1122770_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_3|LR134139.1_1122864_1123590_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_4|LR134139.1_1124027_1125029_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|312aa|down_5|LR134139.1_1125048_1125984_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_6|LR134139.1_1126155_1127712_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_7|LR134139.1_1128019_1128247_+	NA	NA|316aa|down_8|LR134139.1_1128551_1129499_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_9|LR134139.1_1129747_1129936_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	8	1721883-1721969	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	ATGCAAGTTGGGGTGGGGCCCCAACATAGA	30	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|454aa|up_9|LR134139.1_1707071_1708433_+	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|269aa|up_8|LR134139.1_1708465_1709272_-	COG3666, COG3666, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|276aa|up_7|LR134139.1_1709289_1710117_-	COG3666, COG3666, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|586aa|up_6|LR134139.1_1710757_1712515_-	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|323aa|up_5|LR134139.1_1712536_1713505_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|315aa|up_4|LR134139.1_1713773_1714718_-	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|286aa|up_3|LR134139.1_1714717_1715575_-	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|410aa|up_2|LR134139.1_1715769_1716999_-	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|1066aa|up_1|LR134139.1_1717448_1720646_-	COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]	NA|314aa|up_0|LR134139.1_1720666_1721608_-	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|433aa|down_0|LR134139.1_1722059_1723358_-	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|138aa|down_1|LR134139.1_1723562_1723976_+	pfam00582, Usp, Universal stress protein family	NA|230aa|down_2|LR134139.1_1724280_1724970_-	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|352aa|down_3|LR134139.1_1725144_1726200_+	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|373aa|down_4|LR134139.1_1726515_1727634_-	cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic domains	NA|167aa|down_5|LR134139.1_1727774_1728275_+	pfam00582, Usp, Universal stress protein family	NA|401aa|down_6|LR134139.1_1728520_1729723_-	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed	NA|316aa|down_7|LR134139.1_1729810_1730758_-	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|165aa|down_8|LR134139.1_1730880_1731375_-	PRK00522, tpx, thiol peroxidase	NA|257aa|down_9|LR134139.1_1731472_1732243_-	PRK10621, PRK10621, hypothetical protein; Provisional
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	9	2165182-2165338	1	PILER-CR	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	CCCCTACTTTTCAACTTTAGTTGTTAGGGGCTCTTATGCAG	41	0	0	NA	NA	NA	2	2	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|LR134139.1_2160057_2160288_-,NA|364aa|up_0|LR134139.1_2164077_2165169_+,NA|32aa|down_1|LR134139.1_2168700_2168796_+	NA|237aa|up_9|LR134139.1_2155666_2156377_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|LR134139.1_2156497_2156941_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|LR134139.1_2157140_2157554_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|LR134139.1_2158010_2159384_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|LR134139.1_2160057_2160288_-	NA	NA|313aa|up_4|LR134139.1_2160318_2161257_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|LR134139.1_2161692_2162358_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|LR134139.1_2162509_2162830_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|LR134139.1_2162831_2163812_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|LR134139.1_2164077_2165169_+	NA	NA|379aa|down_0|LR134139.1_2166876_2168013_-	pfam02037, SAP, SAP domain	NA|32aa|down_1|LR134139.1_2168700_2168796_+	NA	NA|286aa|down_2|LR134139.1_2169021_2169879_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|LR134139.1_2169946_2170729_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_4|LR134139.1_2170960_2172766_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_5|LR134139.1_2173446_2174985_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_6|LR134139.1_2175019_2177152_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_7|LR134139.1_2177163_2177598_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_8|LR134139.1_2177597_2178704_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|1467aa|down_9|LR134139.1_2179022_2183423_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional
GCA_900635505.1_3012STDY6191362	LR134139	Staphylococcus aureus strain NCTC4163 genome assembly, chromosome: 1	10	2603300-2603381	8	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	2	2603324-2603357|2603324-2603357	LR134139.1_1426744-1426711|LR134139.1_1204911-1204944	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|166aa|up_8|LR134139.1_2593713_2594211_-,NA|107aa|up_1|LR134139.1_2602311_2602632_+,NA	NA|498aa|up_9|LR134139.1_2592227_2593721_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|166aa|up_8|LR134139.1_2593713_2594211_-	NA	NA|256aa|up_7|LR134139.1_2594376_2595144_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|604aa|up_6|LR134139.1_2595504_2597316_-	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|163aa|up_5|LR134139.1_2597826_2598315_-	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain	NA|234aa|up_4|LR134139.1_2598590_2599292_-	cd13925, RPF, core lysozyme-like domain of resuscitation-promoting factor proteins	NA|352aa|up_3|LR134139.1_2599899_2600955_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|196aa|up_2|LR134139.1_2601346_2601934_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|107aa|up_1|LR134139.1_2602311_2602632_+	NA	NA|77aa|up_0|LR134139.1_2602851_2603082_+	COG4224, COG4224, Uncharacterized protein conserved in bacteria [Function unknown]	NA|126aa|down_0|LR134139.1_2603485_2603863_-	COG3607, COG3607, Predicted lactoylglutathione lyase [General function prediction only]	NA|274aa|down_1|LR134139.1_2603879_2604701_-	cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs	NA|100aa|down_2|LR134139.1_2604720_2605020_-	COG4367, COG4367, Uncharacterized protein conserved in bacteria [Function unknown]	NA|186aa|down_3|LR134139.1_2605151_2605709_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|235aa|down_4|LR134139.1_2605701_2606406_+	cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs	NA|337aa|down_5|LR134139.1_2606492_2607503_+	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|277aa|down_6|LR134139.1_2607522_2608353_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|297aa|down_7|LR134139.1_2608499_2609390_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|449aa|down_8|LR134139.1_2609486_2610833_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|369aa|down_9|LR134139.1_2610820_2611927_-	pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide oxidoreductase
