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_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	2	381608-381709	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|128aa|up_8|CP031131.1_372853_373237_-,NA|93aa|up_6|CP031131.1_374191_374470_-,NA|33aa|up_1|CP031131.1_380832_380931_+,NA|86aa|up_0|CP031131.1_381141_381399_-,NA|221aa|down_1|CP031131.1_382799_383462_-,NA|61aa|down_8|CP031131.1_391505_391688_+,NA|131aa|down_9|CP031131.1_391853_392246_-	NA|194aa|up_9|CP031131.1_372206_372788_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_8|CP031131.1_372853_373237_-	NA	NA|209aa|up_7|CP031131.1_373492_374119_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|93aa|up_6|CP031131.1_374191_374470_-	NA	NA|508aa|up_5|CP031131.1_375925_377449_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_4|CP031131.1_377464_378034_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_3|CP031131.1_378525_379281_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_2|CP031131.1_379359_380748_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|33aa|up_1|CP031131.1_380832_380931_+	NA	NA|86aa|up_0|CP031131.1_381141_381399_-	NA	NA|319aa|down_0|CP031131.1_381725_382682_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|221aa|down_1|CP031131.1_382799_383462_-	NA	NA|136aa|down_2|CP031131.1_383604_384012_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|CP031131.1_384524_385103_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|CP031131.1_385102_386371_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|CP031131.1_386408_387875_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|CP031131.1_387899_389441_+	PRK00074, guaA, GMP synthase; Reviewed	NA|369aa|down_7|CP031131.1_389952_391059_+	pfam07751, Abi_2, Abi-like protein	NA|61aa|down_8|CP031131.1_391505_391688_+	NA	NA|131aa|down_9|CP031131.1_391853_392246_-	NA
GCA_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	3	1118467-1118559	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TCATAATGATTAAAAATCAAAGAGG	25	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|359aa|up_9|CP031131.1_1109084_1110161_+,NA|36aa|up_4|CP031131.1_1113188_1113296_+,NA|43aa|up_0|CP031131.1_1118167_1118296_+,NA|32aa|down_5|CP031131.1_1125339_1125435_-	NA|359aa|up_9|CP031131.1_1109084_1110161_+	NA	NA|293aa|up_8|CP031131.1_1110157_1111036_+	TIGR03659, heme_ABC_transporter_heme-binding_protein_isdE, heme ABC transporter, heme-binding protein isdE	NA|323aa|up_7|CP031131.1_1111045_1112014_+	COG0609, FepD, ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]	NA|245aa|up_6|CP031131.1_1112075_1112810_+	COG4509, COG4509, Uncharacterized protein conserved in bacteria [Function unknown]	NA|108aa|up_5|CP031131.1_1112828_1113152_+	PRK13312, PRK13312, staphylobilin-forming heme oxygenase IsdG	NA|36aa|up_4|CP031131.1_1113188_1113296_+	NA	NA|247aa|up_3|CP031131.1_1113535_1114276_+	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|353aa|up_2|CP031131.1_1114655_1115714_+	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated	NA|801aa|up_1|CP031131.1_1115713_1118116_+	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|43aa|up_0|CP031131.1_1118167_1118296_+	NA	NA|89aa|down_0|CP031131.1_1119858_1120125_+	PRK14126, PRK14126, cell division protein ZapA; Provisional	NA|174aa|down_1|CP031131.1_1120125_1120647_+	COG1286, CvpA, Uncharacterized membrane protein, required for colicin V production [General function prediction only]	NA|571aa|down_2|CP031131.1_1120719_1122432_+	PRK08609, PRK08609, DNA polymerase/3'-5' exonuclease PolX	NA|783aa|down_3|CP031131.1_1122441_1124790_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|105aa|down_4|CP031131.1_1124962_1125277_+	TIGR01068, Thioredoxin-like_protein_slr0233, thioredoxin	NA|32aa|down_5|CP031131.1_1125339_1125435_-	NA	NA|594aa|down_6|CP031131.1_1125600_1127382_+	PRK00558, uvrC, excinuclease ABC subunit UvrC	NA|205aa|down_7|CP031131.1_1127705_1128320_+	cd03497, SQR_TypeB_1_TM, Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR	NA|589aa|down_8|CP031131.1_1128371_1130138_+	PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit; Reviewed	NA|272aa|down_9|CP031131.1_1130137_1130953_+	PRK08640, sdhB, succinate dehydrogenase iron-sulfur subunit; Reviewed
GCA_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	4	1899144-1899225	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGCAAGTTGGCGGGGCCACAACATAG	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|33aa|up_9|CP031131.1_1890546_1890645_-,NA|69aa|up_8|CP031131.1_1890658_1890865_+,NA|132aa|up_0|CP031131.1_1898448_1898844_-,NA|51aa|down_0|CP031131.1_1899677_1899830_-	NA|33aa|up_9|CP031131.1_1890546_1890645_-	NA	NA|69aa|up_8|CP031131.1_1890658_1890865_+	NA	NA|115aa|up_7|CP031131.1_1891137_1891482_-	PRK13676, PRK13676, YlbF/YmcA family competence regulator	NA|375aa|up_6|CP031131.1_1891550_1892675_-	COG4399, COG4399, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_5|CP031131.1_1892853_1893318_-	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|208aa|up_4|CP031131.1_1893673_1894297_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|371aa|up_3|CP031131.1_1894318_1895431_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|274aa|up_2|CP031131.1_1895593_1896415_+	COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]	NA|462aa|up_1|CP031131.1_1896867_1898253_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|132aa|up_0|CP031131.1_1898448_1898844_-	NA	NA|51aa|down_0|CP031131.1_1899677_1899830_-	NA	NA|200aa|down_1|CP031131.1_1899854_1900454_-	COG0363, NagB, 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]	NA|157aa|down_2|CP031131.1_1900611_1901082_-	COG0219, CspR, Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]	NA|376aa|down_3|CP031131.1_1901086_1902214_-	TIGR00276, iron-sulfur_cluster-binding_protein, epoxyqueuosine reductase	NA|243aa|down_4|CP031131.1_1902363_1903092_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|486aa|down_5|CP031131.1_1903078_1904536_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|354aa|down_6|CP031131.1_1904793_1905855_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|149aa|down_7|CP031131.1_1914800_1915247_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|317aa|down_8|CP031131.1_1915343_1916294_-	cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family	NA|152aa|down_9|CP031131.1_1916299_1916755_-	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
GCA_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	5	1940843-1940923	5	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TCTATGTTGGGGCCCCGCCAACCTG	25	1	9	1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898|1940868-1940898	CP031131.1_616855-616825|CP031131.1_1040838-1040868|CP031131.1_1141326-1141296|CP031131.1_1351129-1351099|CP031131.1_1618684-1618714|CP031131.1_2292767-2292797|CP031131.1_2581744-2581774|CP031131.1_787106-787136|CP031131.1_2303683-2303713	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|CP031131.1_1935035_1935311_+,NA|129aa|up_1|CP031131.1_1939302_1939689_-,NA|138aa|down_1|CP031131.1_1942608_1943022_-,NA|37aa|down_2|CP031131.1_1943050_1943161_-,NA|31aa|down_6|CP031131.1_1946166_1946259_-	NA|419aa|up_9|CP031131.1_1932958_1934215_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|CP031131.1_1934217_1934418_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|CP031131.1_1934564_1935029_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|CP031131.1_1935035_1935311_+	NA	NA|406aa|up_5|CP031131.1_1935588_1936806_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|CP031131.1_1936917_1937547_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|CP031131.1_1937536_1938580_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|CP031131.1_1938576_1939278_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|CP031131.1_1939302_1939689_-	NA	NA|253aa|up_0|CP031131.1_1939905_1940664_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|CP031131.1_1941191_1942178_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|CP031131.1_1942608_1943022_-	NA	NA|37aa|down_2|CP031131.1_1943050_1943161_-	NA	NA|244aa|down_3|CP031131.1_1943246_1943978_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|CP031131.1_1943979_1945293_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|CP031131.1_1945584_1946085_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|CP031131.1_1946166_1946259_-	NA	DEDDh|185aa|down_7|CP031131.1_1946474_1947029_+	cd06130, DNA_pol_III_epsilon_like, an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III	NA|357aa|down_8|CP031131.1_1947095_1948166_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|CP031131.1_1948412_1948943_-	pfam11667, DUF3267, Putative zincin peptidase
GCA_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	6	2187672-2187752	6	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	CAACTTTAGTTGTTAGGGGCTCTT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|CP031131.1_2182543_2182774_-,NA|364aa|up_0|CP031131.1_2186563_2187655_+,NA|35aa|down_0|CP031131.1_2188087_2188192_-,NA|61aa|down_1|CP031131.1_2188624_2188807_-,NA|53aa|down_2|CP031131.1_2188871_2189030_+,NA|31aa|down_3|CP031131.1_2189465_2189558_+	NA|237aa|up_9|CP031131.1_2178154_2178865_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|CP031131.1_2178985_2179429_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|CP031131.1_2179628_2180042_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|CP031131.1_2180498_2181872_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|CP031131.1_2182543_2182774_-	NA	NA|313aa|up_4|CP031131.1_2182804_2183743_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|CP031131.1_2184178_2184844_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|CP031131.1_2184995_2185316_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|CP031131.1_2185317_2186298_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|CP031131.1_2186563_2187655_+	NA	NA|35aa|down_0|CP031131.1_2188087_2188192_-	NA	NA|61aa|down_1|CP031131.1_2188624_2188807_-	NA	NA|53aa|down_2|CP031131.1_2188871_2189030_+	NA	NA|31aa|down_3|CP031131.1_2189465_2189558_+	NA	NA|286aa|down_4|CP031131.1_2189687_2190545_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_5|CP031131.1_2190612_2191395_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_6|CP031131.1_2191626_2193432_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_7|CP031131.1_2194112_2195651_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_8|CP031131.1_2195685_2197818_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_9|CP031131.1_2197829_2198264_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]
GCA_003342735.1_ASM334273v1	CP031131	Staphylococcus aureus strain E16SA093 chromosome, complete genome	7	2453593-2453690	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTTCTGCGAATTTTATGAGCTAGAAAGGC	29	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|35aa|up_2|CP031131.1_2451315_2451420_+,NA|35aa|down_0|CP031131.1_2454006_2454111_-,NA|62aa|down_2|CP031131.1_2455419_2455605_-,NA|61aa|down_3|CP031131.1_2455733_2455916_-	NA|200aa|up_9|CP031131.1_2444793_2445393_-	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]	NA|121aa|up_8|CP031131.1_2445411_2445774_-	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|417aa|up_7|CP031131.1_2446028_2447279_+	pfam02388, FemAB, FemAB family	NA|244aa|up_6|CP031131.1_2447375_2448107_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|240aa|up_5|CP031131.1_2448103_2448823_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|260aa|up_4|CP031131.1_2448803_2449583_-	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|468aa|up_3|CP031131.1_2449703_2451107_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|35aa|up_2|CP031131.1_2451315_2451420_+	NA	NA|229aa|up_1|CP031131.1_2451573_2452260_-	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|289aa|up_0|CP031131.1_2452586_2453453_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|35aa|down_0|CP031131.1_2454006_2454111_-	NA	NA|437aa|down_1|CP031131.1_2454205_2455516_+	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|62aa|down_2|CP031131.1_2455419_2455605_-	NA	NA|61aa|down_3|CP031131.1_2455733_2455916_-	NA	NA|310aa|down_4|CP031131.1_2456050_2456980_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|316aa|down_5|CP031131.1_2457546_2458494_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|326aa|down_6|CP031131.1_2458495_2459473_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|down_7|CP031131.1_2459524_2459992_-	pfam06177, QueT, QueT transporter	NA|231aa|down_8|CP031131.1_2460002_2460695_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|down_9|CP031131.1_2460705_2461821_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]
