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_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	1	684485-684586	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CATAAGAGCCCCTAATTAATAAATTAAAAGGGG	33	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|39aa|up_2|NZ_CP047795.1_682423_682540_+,NA|230aa|down_2|NZ_CP047795.1_686407_687097_-,NA|100aa|down_5|NZ_CP047795.1_688261_688561_+	NA|336aa|up_9|NZ_CP047795.1_674205_675213_+	pfam01384, PHO4, Phosphate transporter family	NA|266aa|up_8|NZ_CP047795.1_675798_676596_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|215aa|up_7|NZ_CP047795.1_676956_677601_+	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|717aa|up_6|NZ_CP047795.1_678297_680448_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|120aa|up_5|NZ_CP047795.1_680593_680953_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|239aa|up_4|NZ_CP047795.1_681142_681859_+	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|158aa|up_3|NZ_CP047795.1_681858_682332_+	COG3542, COG3542, Uncharacterized conserved protein [Function unknown]	NA|39aa|up_2|NZ_CP047795.1_682423_682540_+	NA	NA|215aa|up_1|NZ_CP047795.1_682684_683329_+	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|289aa|up_0|NZ_CP047795.1_683444_684311_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|407aa|down_0|NZ_CP047795.1_684603_685824_+	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|163aa|down_1|NZ_CP047795.1_685820_686309_+	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|230aa|down_2|NZ_CP047795.1_686407_687097_-	NA	NA|148aa|down_3|NZ_CP047795.1_687224_687668_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|130aa|down_4|NZ_CP047795.1_687734_688124_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|100aa|down_5|NZ_CP047795.1_688261_688561_+	NA	NA|181aa|down_6|NZ_CP047795.1_688640_689183_+	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|189aa|down_7|NZ_CP047795.1_689277_689844_-	COG1611, COG1611, Predicted Rossmann fold nucleotide-binding protein [General function prediction only]	NA|153aa|down_8|NZ_CP047795.1_689845_690304_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|228aa|down_9|NZ_CP047795.1_690306_690990_-	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCF_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	2	783273-783356	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GTAAGCTGACTTTACGTTAGCTTCT	25	1	1	783298-783331	NZ_CP047795.1_1032811-1032844	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|NZ_CP047795.1_770694_771534_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_CP047795.1_771707_772358_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_CP047795.1_772354_772591_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_CP047795.1_772859_774845_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|943aa|up_5|NZ_CP047795.1_774852_777681_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP047795.1_778057_778990_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP047795.1_778995_779835_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP047795.1_779842_780328_+	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|NZ_CP047795.1_780335_781775_+	sd00006, TPR, Tetratricopeptide repeat	NA|312aa|up_0|NZ_CP047795.1_781841_782777_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP047795.1_783604_784516_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP047795.1_784512_785508_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP047795.1_785618_786563_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP047795.1_787125_787713_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|545aa|down_4|NZ_CP047795.1_787894_789529_+	PRK13529, PRK13529, oxaloacetate-decarboxylating malate dehydrogenase	NA|301aa|down_5|NZ_CP047795.1_789975_790878_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_6|NZ_CP047795.1_791580_792210_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_7|NZ_CP047795.1_792819_793833_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_8|NZ_CP047795.1_793885_794896_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_9|NZ_CP047795.1_795034_796225_+	PRK00073, pgk, phosphoglycerate kinase; Provisional
GCF_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	3	789746-789825	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CAGCTTCTATGTTGGGGCCCCGCC	24	1	6	789770-789801|789770-789801|789770-789801|789770-789801|789770-789801|789770-789801	NZ_CP047795.1_229689-229658|NZ_CP047795.1_2264589-2264558|NZ_CP047795.1_2264645-2264614|NZ_CP047795.1_2423158-2423127|NZ_CP047795.1_893470-893439|NZ_CP047795.1_1862034-1862003	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|153aa|down_8|NZ_CP047795.1_800400_800859_+	NA|311aa|up_9|NZ_CP047795.1_778057_778990_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_8|NZ_CP047795.1_778995_779835_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_7|NZ_CP047795.1_779842_780328_+	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_6|NZ_CP047795.1_780335_781775_+	sd00006, TPR, Tetratricopeptide repeat	NA|312aa|up_5|NZ_CP047795.1_781841_782777_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|up_4|NZ_CP047795.1_783604_784516_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|up_3|NZ_CP047795.1_784512_785508_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|up_2|NZ_CP047795.1_785618_786563_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|up_1|NZ_CP047795.1_787125_787713_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|545aa|up_0|NZ_CP047795.1_787894_789529_+	PRK13529, PRK13529, oxaloacetate-decarboxylating malate dehydrogenase	NA|301aa|down_0|NZ_CP047795.1_789975_790878_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_1|NZ_CP047795.1_791580_792210_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_2|NZ_CP047795.1_792819_793833_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_3|NZ_CP047795.1_793885_794896_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_4|NZ_CP047795.1_795034_796225_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_5|NZ_CP047795.1_796346_797108_+	PRK00042, tpiA, triosephosphate isomerase; Provisional	NA|506aa|down_6|NZ_CP047795.1_797110_798628_+	PRK05434, PRK05434, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase	NA|435aa|down_7|NZ_CP047795.1_798757_800062_+	PRK00077, eno, enolase; Provisional	NA|153aa|down_8|NZ_CP047795.1_800400_800859_+	NA	NA|78aa|down_9|NZ_CP047795.1_800925_801159_+	COG1314, SecG, Preprotein translocase subunit SecG [Intracellular trafficking and secretion]
GCF_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	4	1869289-1869416	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AATTATGGAGCGGAAGATAGGATTTACACCTATACCTC	38	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|132aa|up_7|NZ_CP047795.1_1861220_1861616_-,NA|51aa|up_6|NZ_CP047795.1_1862442_1862595_-,NA	NA|274aa|up_9|NZ_CP047795.1_1858361_1859183_+	COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]	NA|462aa|up_8|NZ_CP047795.1_1859639_1861025_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|132aa|up_7|NZ_CP047795.1_1861220_1861616_-	NA	NA|51aa|up_6|NZ_CP047795.1_1862442_1862595_-	NA	NA|200aa|up_5|NZ_CP047795.1_1862619_1863219_-	COG0363, NagB, 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]	NA|157aa|up_4|NZ_CP047795.1_1863377_1863848_-	COG0219, CspR, Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]	NA|381aa|up_3|NZ_CP047795.1_1863852_1864995_-	TIGR00276, iron-sulfur_cluster-binding_protein, epoxyqueuosine reductase	NA|243aa|up_2|NZ_CP047795.1_1865130_1865859_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|486aa|up_1|NZ_CP047795.1_1865845_1867303_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|354aa|up_0|NZ_CP047795.1_1867561_1868623_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|149aa|down_0|NZ_CP047795.1_1877359_1877806_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|317aa|down_1|NZ_CP047795.1_1877902_1878853_-	cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family	NA|152aa|down_2|NZ_CP047795.1_1878858_1879314_-	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|430aa|down_3|NZ_CP047795.1_1879394_1880684_+	PRK12389, PRK12389, glutamate-1-semialdehyde aminotransferase; Provisional	NA|365aa|down_4|NZ_CP047795.1_1880976_1882071_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|579aa|down_5|NZ_CP047795.1_1882261_1883998_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|181aa|down_6|NZ_CP047795.1_1884288_1884831_-	PRK13662, PRK13662, hypothetical protein; Provisional	NA|346aa|down_7|NZ_CP047795.1_1885133_1886171_-	COG1194, MutY, A/G-specific DNA glycosylase [DNA replication, recombination, and repair]	NA|326aa|down_8|NZ_CP047795.1_1886322_1887300_+	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|279aa|down_9|NZ_CP047795.1_1887560_1888397_-	COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
GCF_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	5	2191391-2191529	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTTTTAATATTTTTCTTTTGAGTTACTCGAAAATTTTTCTCTTTACTCGAA	51	1	1	2191442-2191478	NZ_CP047795.1_2191353-2191389	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|93aa|up_7|NZ_CP047795.1_2183429_2183708_+,NA|67aa|up_1|NZ_CP047795.1_2190064_2190265_+,NA|61aa|up_0|NZ_CP047795.1_2190246_2190429_-,NA	NA|807aa|up_9|NZ_CP047795.1_2179081_2181502_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_8|NZ_CP047795.1_2181700_2182555_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|93aa|up_7|NZ_CP047795.1_2183429_2183708_+	NA	NA|506aa|up_6|NZ_CP047795.1_2183717_2185235_+	cd04949, GT4_GtfA-like, accessory Sec system glycosyltransferase GtfA and similar proteins	NA|272aa|up_5|NZ_CP047795.1_2185459_2186275_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_4|NZ_CP047795.1_2186569_2186995_+	pfam03642, MAP, MAP domain	NA|235aa|up_3|NZ_CP047795.1_2187370_2188075_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_2|NZ_CP047795.1_2188111_2189776_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|67aa|up_1|NZ_CP047795.1_2190064_2190265_+	NA	NA|61aa|up_0|NZ_CP047795.1_2190246_2190429_-	NA	NA|133aa|down_0|NZ_CP047795.1_2193305_2193704_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_1|NZ_CP047795.1_2193717_2194155_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|268aa|down_2|NZ_CP047795.1_2194394_2195198_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_3|NZ_CP047795.1_2195202_2196009_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_4|NZ_CP047795.1_2195998_2196859_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_5|NZ_CP047795.1_2196855_2197665_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|123aa|down_6|NZ_CP047795.1_2198202_2198571_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|315aa|down_7|NZ_CP047795.1_2198587_2199532_-	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|130aa|down_8|NZ_CP047795.1_2199606_2199996_-	PRK05309, PRK05309, 30S ribosomal protein S11; Validated	NA|122aa|down_9|NZ_CP047795.1_2200019_2200385_-	PRK05179, rpsM, 30S ribosomal protein S13; Validated
GCF_009912635.1_ASM991263v1	NZ_CP047795	Staphylococcus aureus strain UP_490 chromosome, complete genome	6	2382484-2382577	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTCTTCAAATTTATTTGTTAGAAAGG	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|35aa|up_2|NZ_CP047795.1_2380205_2380310_+,NA|35aa|down_0|NZ_CP047795.1_2382771_2382876_-	NA|200aa|up_9|NZ_CP047795.1_2373682_2374282_-	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]	NA|121aa|up_8|NZ_CP047795.1_2374300_2374663_-	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|417aa|up_7|NZ_CP047795.1_2374917_2376168_+	pfam02388, FemAB, FemAB family	NA|244aa|up_6|NZ_CP047795.1_2376264_2376996_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|240aa|up_5|NZ_CP047795.1_2376992_2377712_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|260aa|up_4|NZ_CP047795.1_2377692_2378472_-	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|480aa|up_3|NZ_CP047795.1_2378592_2380032_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|35aa|up_2|NZ_CP047795.1_2380205_2380310_+	NA	NA|229aa|up_1|NZ_CP047795.1_2380463_2381150_-	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|289aa|up_0|NZ_CP047795.1_2381476_2382343_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|35aa|down_0|NZ_CP047795.1_2382771_2382876_-	NA	NA|438aa|down_1|NZ_CP047795.1_2382970_2384284_+	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|310aa|down_2|NZ_CP047795.1_2384819_2385749_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|316aa|down_3|NZ_CP047795.1_2386316_2387264_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|326aa|down_4|NZ_CP047795.1_2387265_2388243_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|down_5|NZ_CP047795.1_2388301_2388769_-	pfam06177, QueT, QueT transporter	NA|231aa|down_6|NZ_CP047795.1_2388779_2389472_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|down_7|NZ_CP047795.1_2389482_2390598_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|336aa|down_8|NZ_CP047795.1_2390575_2391583_-	PRK06256, PRK06256, biotin synthase; Validated	NA|453aa|down_9|NZ_CP047795.1_2391584_2392943_-	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase
