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_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	1	512169-512253	1	CRISPRCasFinder	no	cas3	cas3,csa3,DEDDh,DinG,WYL	Unclear	CACCCCAACTTGCATTGTCTGTAGAA	26	1	2	512195-512227|512195-512227	LR134351.1_753878-753910|LR134351.1_2183862-2183830	NA	1	1	Unclear	cas3,csa3,DEDDh,DinG,WYL	NA,NA	NA|254aa|up_9|LR134351.1_499661_500423_-	COG2966, COG2966, Uncharacterized conserved protein [Function unknown]	NA|357aa|up_8|LR134351.1_500618_501689_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|352aa|up_7|LR134351.1_502006_503062_+	cd06853, GT_WecA_like, This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins	NA|214aa|up_6|LR134351.1_503225_503867_-	COG1739, COG1739, Uncharacterized conserved protein [Function unknown]	NA|289aa|up_5|LR134351.1_504010_504877_+	TIGR00762, DegV, EDD domain protein, DegV family	cas3|361aa|up_4|LR134351.1_505240_506323_+	COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	NA|225aa|up_3|LR134351.1_506315_506990_+	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|191aa|up_2|LR134351.1_507050_507623_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_1|LR134351.1_508036_510568_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|331aa|up_0|LR134351.1_511000_511993_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|280aa|down_0|LR134351.1_512761_513601_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|down_1|LR134351.1_513774_514425_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|down_2|LR134351.1_514421_514658_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|down_3|LR134351.1_514926_516912_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|down_4|LR134351.1_516919_519766_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_5|LR134351.1_520376_521309_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|281aa|down_6|LR134351.1_521314_522157_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_7|LR134351.1_522164_522650_+	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_8|LR134351.1_522657_524097_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_9|LR134351.1_524163_525099_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	2	577261-577340	2	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	CCGTCAGCTTCTGTGTTGGGGCCC	24	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|126aa|up_3|LR134351.1_573219_573597_-,NA	NA|119aa|up_9|LR134351.1_568369_568726_+	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_8|LR134351.1_568883_569264_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|271aa|up_7|LR134351.1_569327_570140_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|221aa|up_6|LR134351.1_570258_570921_-	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|244aa|up_5|LR134351.1_571429_572161_+	pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase	NA|261aa|up_4|LR134351.1_572286_573069_-	PRK13746, PRK13746, aminoglycoside resistance protein; Provisional	NA|126aa|up_3|LR134351.1_573219_573597_-	NA	NA|631aa|up_2|LR134351.1_573603_575496_-	cd01187, INT_tnpB_C_Tn554, Putative Transposase B from transposon Tn554, C-terminal catalytic domain	NA|362aa|up_1|LR134351.1_575492_576578_-	cd01186, INT_tnpA_C_Tn554, Putative Transposase A from transposon Tn554, C-terminal catalytic domain	NA|96aa|up_0|LR134351.1_576719_577007_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|130aa|down_0|LR134351.1_577594_577984_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|LR134351.1_577976_578273_+	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|LR134351.1_578522_579548_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|LR134351.1_579540_580236_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|LR134351.1_580253_581075_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|LR134351.1_581890_582085_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|LR134351.1_582318_583170_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|LR134351.1_583497_584259_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|LR134351.1_584356_585664_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|414aa|down_9|LR134351.1_585778_587020_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	3	628044-628129	3	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	AAAGTCAGCTTACAATAATGTGCAAGTTGG	30	1	2	628074-628099|628074-628099	LR134351.1_1925292-1925317|LR134351.1_1985376-1985401	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA,NA	NA|499aa|up_9|LR134351.1_616933_618430_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|LR134351.1_618422_618764_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|LR134351.1_618763_619192_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|LR134351.1_619184_621590_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|LR134351.1_621720_622104_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|LR134351.1_622167_622761_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|LR134351.1_623175_623553_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|LR134351.1_623914_625042_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|LR134351.1_625349_626540_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|LR134351.1_626648_627893_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|LR134351.1_628287_629217_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|LR134351.1_629458_630838_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|LR134351.1_630827_632033_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|LR134351.1_632383_633715_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|LR134351.1_634040_634616_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|LR134351.1_634620_635145_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|LR134351.1_635160_635736_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|LR134351.1_635895_639372_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|LR134351.1_639372_643026_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|LR134351.1_643191_644094_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	4	929233-929325	4	CRISPRCasFinder	no	cas3	cas3,csa3,DEDDh,DinG,WYL	Unclear	TAAGAAACAGTAATCAATAAATTGATAACT	30	0	0	NA	NA	NA	1	1	Unclear	cas3,csa3,DEDDh,DinG,WYL	NA,NA	NA|215aa|up_9|LR134351.1_919107_919752_+	COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]	NA|214aa|up_8|LR134351.1_919758_920400_+	COG1564, THI80, Thiamine pyrophosphokinase [Coenzyme metabolism]	NA|63aa|up_7|LR134351.1_920780_920969_-	PRK00359, rpmB, 50S ribosomal protein L28; Reviewed	NA|125aa|up_6|LR134351.1_921411_921786_+	COG1302, COG1302, Uncharacterized protein conserved in bacteria [Function unknown]	NA|549aa|up_5|LR134351.1_921800_923447_+	COG1461, COG1461, Predicted kinase related to dihydroxyacetone kinase [General function prediction only]	cas3|687aa|up_4|LR134351.1_923636_925697_+	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	NA|186aa|up_3|LR134351.1_925914_926472_+	PRK04424, PRK04424, transcription factor FapR	NA|329aa|up_2|LR134351.1_926476_927463_+	PRK05331, PRK05331, phosphate acyltransferase PlsX	NA|309aa|up_1|LR134351.1_927455_928382_+	COG0331, FabD, (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]	NA|245aa|up_0|LR134351.1_928374_929109_+	PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Validated	NA|78aa|down_0|LR134351.1_929414_929648_+	PRK00982, acpP, acyl carrier protein; Provisional	NA|244aa|down_1|LR134351.1_929763_930495_+	PRK00102, rnc, ribonuclease III; Reviewed	NA|1189aa|down_2|LR134351.1_930641_934208_+	COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]	NA|417aa|down_3|LR134351.1_934207_935458_+	PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional	NA|111aa|down_4|LR134351.1_935444_935777_+	PRK00118, PRK00118, putative DNA-binding protein; Validated	NA|456aa|down_5|LR134351.1_935802_937170_+	PRK10867, PRK10867, signal recognition particle protein; Provisional	NA|92aa|down_6|LR134351.1_937604_937880_+	COG0228, RpsP, Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]	NA|168aa|down_7|LR134351.1_938067_938571_+	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional	NA|246aa|down_8|LR134351.1_938570_939308_+	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed	NA|117aa|down_9|LR134351.1_939410_939761_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	5	1702995-1703122	5	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	AATTATGGAGCGGAAGATAGGATTTACACCTATACCTC	38	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|132aa|up_7|LR134351.1_1695154_1695550_-,NA|51aa|up_6|LR134351.1_1696150_1696303_-,NA	NA|274aa|up_9|LR134351.1_1692296_1693118_+	COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]	NA|462aa|up_8|LR134351.1_1693573_1694959_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|132aa|up_7|LR134351.1_1695154_1695550_-	NA	NA|51aa|up_6|LR134351.1_1696150_1696303_-	NA	NA|200aa|up_5|LR134351.1_1696327_1696927_-	COG0363, NagB, 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]	NA|157aa|up_4|LR134351.1_1697085_1697556_-	COG0219, CspR, Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_3|LR134351.1_1697560_1698688_-	TIGR00276, iron-sulfur_cluster-binding_protein, epoxyqueuosine reductase	NA|243aa|up_2|LR134351.1_1698838_1699567_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|486aa|up_1|LR134351.1_1699553_1701011_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|354aa|up_0|LR134351.1_1701269_1702331_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|149aa|down_0|LR134351.1_1711143_1711590_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|320aa|down_1|LR134351.1_1711686_1712646_-	cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family	NA|152aa|down_2|LR134351.1_1712642_1713098_-	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|430aa|down_3|LR134351.1_1713178_1714468_+	PRK12389, PRK12389, glutamate-1-semialdehyde aminotransferase; Provisional	NA|382aa|down_4|LR134351.1_1714709_1715855_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|579aa|down_5|LR134351.1_1716045_1717782_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|181aa|down_6|LR134351.1_1718072_1718615_-	PRK13662, PRK13662, hypothetical protein; Provisional	NA|346aa|down_7|LR134351.1_1718917_1719955_-	COG1194, MutY, A/G-specific DNA glycosylase [DNA replication, recombination, and repair]	NA|326aa|down_8|LR134351.1_1720106_1721084_+	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|279aa|down_9|LR134351.1_1721344_1722181_-	COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	6	1791653-1791844	1	CRT	no	DEDDh	cas3,csa3,DEDDh,DinG,WYL	Unclear	NNTCTNTGTTGGGGCCCNCACC	22	2	9	1791674-1791710|1791732-1791765|1791732-1791765|1791732-1791765|1791732-1791765|1791732-1791765|1791732-1791765|1791732-1791765|1791732-1791765	LR134351.1_525461-525497|LR134351.1_35630-35597|LR134351.1_479063-479030|LR134351.1_512234-512267|LR134351.1_780035-780068|LR134351.1_1525012-1524979|LR134351.1_2149542-2149575|LR134351.1_2291615-2291582|LR134351.1_2880762-2880729	NA	3	3	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|138aa|up_8|LR134351.1_1782616_1783030_-,NA	NA|329aa|up_9|LR134351.1_1781441_1782428_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|up_8|LR134351.1_1782616_1783030_-	NA	NA|244aa|up_7|LR134351.1_1783254_1783986_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|up_6|LR134351.1_1783987_1785301_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|up_5|LR134351.1_1785592_1786093_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	DEDDh|185aa|up_4|LR134351.1_1786483_1787038_+	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|up_3|LR134351.1_1787104_1788175_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|up_2|LR134351.1_1788421_1788952_-	pfam11667, DUF3267, Putative zincin peptidase	NA|454aa|up_1|LR134351.1_1789121_1790483_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|316aa|up_0|LR134351.1_1790563_1791511_-	PRK13337, PRK13337, putative lipid kinase; Reviewed	NA|476aa|down_0|LR134351.1_1792333_1793761_-	PRK05477, gatB, Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatB	NA|486aa|down_1|LR134351.1_1793773_1795231_-	PRK00012, gatA, Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatA	NA|101aa|down_2|LR134351.1_1795232_1795535_-	PRK00034, gatC, Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatC	NA|513aa|down_3|LR134351.1_1795901_1797440_+	TIGR02121, Osmoregulated_proline_transporter, sodium/proline symporter	NA|400aa|down_4|LR134351.1_1797528_1798728_-	COG4851, CamS, Protein involved in sex pheromone biosynthesis [General function prediction only]	NA|668aa|down_5|LR134351.1_1798740_1800744_-	PRK07956, ligA, NAD-dependent DNA ligase LigA; Validated	NA|731aa|down_6|LR134351.1_1800747_1802940_-	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA	NA|231aa|down_7|LR134351.1_1802936_1803629_-	COG1646, COG1646, Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]	NA|101aa|down_8|LR134351.1_1803800_1804103_-	COG4496, COG4496, Uncharacterized protein conserved in bacteria [Function unknown]	NA|432aa|down_9|LR134351.1_1804211_1805507_-	cd01360, Adenylsuccinate_lyase_1, Adenylsuccinate lyase (ASL)_subgroup 1
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	7	1901251-1901339	6	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	GTTTTTGACTGACTTCTCAATCA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|127aa|up_8|LR134351.1_1896301_1896682_-,NA|128aa|up_4|LR134351.1_1899967_1900351_-,NA|68aa|up_3|LR134351.1_1900352_1900556_-,NA|52aa|up_2|LR134351.1_1900540_1900696_-,NA	NA|214aa|up_9|LR134351.1_1895663_1896305_-	pfam16560, SAPI, Putative mobile pathogenicity island	NA|127aa|up_8|LR134351.1_1896301_1896682_-	NA	NA|570aa|up_7|LR134351.1_1896993_1898703_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|290aa|up_6|LR134351.1_1898716_1899586_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|106aa|up_5|LR134351.1_1899649_1899967_-	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|128aa|up_4|LR134351.1_1899967_1900351_-	NA	NA|68aa|up_3|LR134351.1_1900352_1900556_-	NA	NA|52aa|up_2|LR134351.1_1900540_1900696_-	NA	NA|106aa|up_1|LR134351.1_1900692_1901010_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|73aa|up_0|LR134351.1_1901014_1901233_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|225aa|down_0|LR134351.1_1901405_1902080_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|391aa|down_1|LR134351.1_1902093_1903266_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|539aa|down_2|LR134351.1_1903334_1904951_-	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|95aa|down_3|LR134351.1_1905026_1905311_-	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|248aa|down_4|LR134351.1_1905485_1906229_+	pfam02517, Abi, CAAX protease self-immunity	NA|405aa|down_5|LR134351.1_1906253_1907468_-	PRK10819, PRK10819, transport protein TonB; Provisional	NA|209aa|down_6|LR134351.1_1907664_1908291_+	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|262aa|down_7|LR134351.1_1908651_1909437_+	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|206aa|down_8|LR134351.1_1910355_1910973_+	smart00793, AgrB, Accessory gene regulator B	NA|47aa|down_9|LR134351.1_1910976_1911117_+	smart00794, AgrD, Staphylococcal AgrD protein
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	8	2051037-2051238	1	PILER-CR	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	TCCTTGGTTGGCAGGTGCAGCTGGATGTGCTGTA	34	0	0	NA	NA	NA	2	2	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|364aa|up_9|LR134351.1_2029002_2030094_+,NA	NA|364aa|up_9|LR134351.1_2029002_2030094_+	NA	NA|549aa|up_8|LR134351.1_2030381_2032028_+	COG3666, COG3666, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|286aa|up_7|LR134351.1_2034054_2034912_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|up_6|LR134351.1_2034979_2035762_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|up_5|LR134351.1_2035993_2037799_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|up_4|LR134351.1_2038479_2040018_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_3|LR134351.1_2040052_2042185_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_2|LR134351.1_2042196_2042631_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_1|LR134351.1_2042630_2043737_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|2224aa|up_0|LR134351.1_2044055_2050727_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|41aa|down_0|LR134351.1_2051321_2051444_-	pfam04650, YSIRK_signal, YSIRK type signal peptide	NA|452aa|down_1|LR134351.1_2051726_2053082_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_2|LR134351.1_2053108_2054041_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|down_3|LR134351.1_2054042_2054852_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|down_4|LR134351.1_2055041_2055950_-	cd09989, Arginase, Arginase family	NA|355aa|down_5|LR134351.1_2062167_2063232_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|363aa|down_6|LR134351.1_2063379_2064468_-	cd17503, MFS_LmrB_MDR_like, Bacillus subtilis lincomycin resistance protein (LmrB) and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|132aa|down_7|LR134351.1_2064427_2064823_-	cd17503, MFS_LmrB_MDR_like, Bacillus subtilis lincomycin resistance protein (LmrB) and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|156aa|down_8|LR134351.1_2065011_2065479_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|448aa|down_9|LR134351.1_2065606_2066950_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	9	2109571-2109696	7	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	CCTCTTTACTCGAAAGCTCACAAAACTCTTGATATCA	37	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|98aa|up_9|LR134351.1_2097806_2098100_-,NA|42aa|up_8|LR134351.1_2098054_2098180_-,NA	NA|98aa|up_9|LR134351.1_2097806_2098100_-	NA	NA|42aa|up_8|LR134351.1_2098054_2098180_-	NA	NA|283aa|up_7|LR134351.1_2098400_2099249_-	cd19133, AKR_AKR5F1, the AKR5F family of aldo-keto reductase (AKR)	NA|139aa|up_6|LR134351.1_2099318_2099735_-	cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB	NA|809aa|up_5|LR134351.1_2100141_2102568_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_4|LR134351.1_2102627_2103482_-	pfam01551, Peptidase_M23, Peptidase family M23	NA|272aa|up_3|LR134351.1_2103692_2104508_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_2|LR134351.1_2104802_2105228_+	pfam03642, MAP, MAP domain	NA|235aa|up_1|LR134351.1_2105618_2106323_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_0|LR134351.1_2106359_2108024_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|479aa|down_0|LR134351.1_2109753_2111190_-	COG2865, COG2865, Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]	NA|133aa|down_1|LR134351.1_2111538_2111937_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_2|LR134351.1_2111950_2112388_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|265aa|down_3|LR134351.1_2112636_2113431_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_4|LR134351.1_2113435_2114242_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_5|LR134351.1_2114231_2115092_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_6|LR134351.1_2115088_2115898_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|243aa|down_7|LR134351.1_2116300_2117029_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|263aa|down_8|LR134351.1_2117052_2117841_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|123aa|down_9|LR134351.1_2118093_2118462_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated
GCA_900637155.1_49386_H02	LR134351	Staphylococcus aureus strain NCTC13811 genome assembly, chromosome: 1	10	2149578-2149658	8	CRISPRCasFinder	no		cas3,csa3,DEDDh,DinG,WYL	Orphan	TCTATGTTGGGGCCCCGCCAACTTG	25	1	6	2149603-2149633|2149603-2149633|2149603-2149633|2149603-2149633|2149603-2149633|2149603-2149633	LR134351.1_780098-780128|LR134351.1_1398574-1398604|LR134351.1_525585-525615|LR134351.1_581573-581543|LR134351.1_628065-628035|LR134351.1_1781116-1781146	NA	1	1	Orphan	cas3,csa3,DEDDh,DinG,WYL	NA|55aa|up_8|LR134351.1_2140107_2140272_+,NA|106aa|up_7|LR134351.1_2140516_2140834_+,NA|84aa|up_4|LR134351.1_2145958_2146210_+,NA	NA|303aa|up_9|LR134351.1_2139066_2139975_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|55aa|up_8|LR134351.1_2140107_2140272_+	NA	NA|106aa|up_7|LR134351.1_2140516_2140834_+	NA	NA|1056aa|up_6|LR134351.1_2141020_2144188_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_5|LR134351.1_2144304_2145570_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_4|LR134351.1_2145958_2146210_+	NA	NA|255aa|up_3|LR134351.1_2146201_2146966_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_2|LR134351.1_2147128_2147569_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_1|LR134351.1_2147561_2148773_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_0|LR134351.1_2148874_2149225_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|341aa|down_0|LR134351.1_2149801_2150824_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|LR134351.1_2150843_2151443_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|LR134351.1_2151449_2151683_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|LR134351.1_2151688_2152135_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|LR134351.1_2152148_2152634_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|LR134351.1_2152630_2153890_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|LR134351.1_2153952_2154447_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|LR134351.1_2154448_2154955_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|LR134351.1_2154983_2155988_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|LR134351.1_2156155_2156761_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
