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_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	1	639332-639419	1	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	AAAAGAAATTCTACAGGCAATGCAAGTTGG	30	1	1	639362-639389	LR134086.1_1989621-1989594	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA,NA|36aa|down_5|LR134086.1_644328_644436_+	NA|328aa|up_9|LR134086.1_629309_630293_+	COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid metabolism]	NA|359aa|up_8|LR134086.1_630305_631382_+	TIGR01220, phosphomevalonate_kinase, phosphomevalonate kinase, ERG8-type, Gram-positive branch	NA|114aa|up_7|LR134086.1_631558_631900_+	pfam07293, DUF1450, Protein of unknown function (DUF1450)	NA|441aa|up_6|LR134086.1_631951_633274_-	PRK07251, PRK07251, FAD-containing oxidoreductase	NA|147aa|up_5|LR134086.1_633260_633701_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|465aa|up_4|LR134086.1_634324_635719_+	pfam04740, LXG, LXG domain of WXG superfamily	NA|211aa|up_3|LR134086.1_635722_636355_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|207aa|up_2|LR134086.1_636401_637022_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|211aa|up_1|LR134086.1_637161_637794_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|313aa|up_0|LR134086.1_638241_639180_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|down_0|LR134086.1_639677_640214_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|down_1|LR134086.1_640382_640859_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|down_2|LR134086.1_640898_642194_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|169aa|down_3|LR134086.1_642236_642743_+	pfam08741, YwhD, YwhD family	NA|337aa|down_4|LR134086.1_643241_644252_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|down_5|LR134086.1_644328_644436_+	NA	NA|139aa|down_6|LR134086.1_644528_644945_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|down_7|LR134086.1_644941_646603_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|down_8|LR134086.1_646936_647572_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_9|LR134086.1_647944_648832_+	cd01143, YvrC, Periplasmic binding protein YvrC
GCA_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	3	1989503-1989592	3	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,RT,DinG,csa3,WYL	Unclear	CCCCAACTTGCATTGCCTGTAGAATTTCTTTT	32	1	3	1989535-1989560|1989535-1989560|1989535-1989560	LR134086.1_809217-809242|LR134086.1_1990995-1991020|LR134086.1_2345270-2345295	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|92aa|up_6|LR134086.1_1983750_1984026_+,NA|129aa|up_1|LR134086.1_1988008_1988395_-,NA|138aa|down_1|LR134086.1_1991314_1991728_-	NA|416aa|up_9|LR134086.1_1981673_1982921_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|69aa|up_8|LR134086.1_1982932_1983139_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|LR134086.1_1983279_1983744_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|LR134086.1_1983750_1984026_+	NA	NA|406aa|up_5|LR134086.1_1984303_1985521_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|LR134086.1_1985633_1986263_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|LR134086.1_1986252_1987296_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|LR134086.1_1987292_1987994_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|LR134086.1_1988008_1988395_-	NA	NA|253aa|up_0|LR134086.1_1988611_1989370_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|LR134086.1_1989897_1990884_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|LR134086.1_1991314_1991728_-	NA	NA|244aa|down_2|LR134086.1_1991952_1992684_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_3|LR134086.1_1992685_1993999_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_4|LR134086.1_1994290_1994791_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|76aa|down_5|LR134086.1_1995179_1995407_+	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	DEDDh|110aa|down_6|LR134086.1_1995403_1995733_+	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_7|LR134086.1_1995800_1996871_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_8|LR134086.1_1997117_1997648_-	pfam11667, DUF3267, Putative zincin peptidase	NA|454aa|down_9|LR134086.1_1997817_1999179_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
GCA_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	4	2238680-2238782	4	CRISPRCasFinder	no	csa3	cas3,DEDDh,RT,DinG,csa3,WYL	Type I-A	AGCATCCAACTGTATTCCTCTATTTTTCAACTTTAGT	37	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|77aa|up_5|LR134086.1_2233512_2233743_-,NA|364aa|up_0|LR134086.1_2237532_2238624_+,NA	NA|237aa|up_9|LR134086.1_2229121_2229832_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|LR134086.1_2229953_2230397_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|LR134086.1_2230596_2231010_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|LR134086.1_2231465_2232839_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|LR134086.1_2233512_2233743_-	NA	NA|313aa|up_4|LR134086.1_2233773_2234712_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|LR134086.1_2235147_2235813_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|LR134086.1_2235964_2236285_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|LR134086.1_2236286_2237267_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|LR134086.1_2237532_2238624_+	NA	NA|286aa|down_0|LR134086.1_2240737_2241595_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_1|LR134086.1_2241662_2242445_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_2|LR134086.1_2242676_2244482_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_3|LR134086.1_2245162_2246701_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_4|LR134086.1_2246735_2248868_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_5|LR134086.1_2248879_2249314_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_6|LR134086.1_2249313_2250420_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|2439aa|down_7|LR134086.1_2250738_2258055_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|452aa|down_8|LR134086.1_2258331_2259687_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_9|LR134086.1_2259713_2260646_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]
GCA_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	5	2318948-2319072	5	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	CCTCTTTACTCGAAAGCTCACAAAACCCTTGATATCA	37	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|93aa|up_5|LR134086.1_2311018_2311297_+,NA	NA|283aa|up_9|LR134086.1_2305063_2305912_-	cd19133, AKR_AKR5F1, the AKR5F family of aldo-keto reductase (AKR)	NA|139aa|up_8|LR134086.1_2305981_2306398_-	cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB	NA|809aa|up_7|LR134086.1_2306805_2309232_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_6|LR134086.1_2309291_2310146_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|93aa|up_5|LR134086.1_2311018_2311297_+	NA	NA|506aa|up_4|LR134086.1_2311306_2312824_+	cd04949, GT4_GtfA-like, accessory Sec system glycosyltransferase GtfA and similar proteins	NA|272aa|up_3|LR134086.1_2313056_2313872_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_2|LR134086.1_2314166_2314592_+	pfam03642, MAP, MAP domain	NA|235aa|up_1|LR134086.1_2314970_2315675_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_0|LR134086.1_2315711_2317376_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|133aa|down_0|LR134086.1_2319470_2319869_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_1|LR134086.1_2319882_2320320_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|268aa|down_2|LR134086.1_2320559_2321363_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_3|LR134086.1_2321367_2322174_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_4|LR134086.1_2322163_2323024_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_5|LR134086.1_2323020_2323830_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|123aa|down_6|LR134086.1_2324367_2324736_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|315aa|down_7|LR134086.1_2324752_2325697_-	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|130aa|down_8|LR134086.1_2325771_2326161_-	PRK05309, PRK05309, 30S ribosomal protein S11; Validated	NA|122aa|down_9|LR134086.1_2326184_2326550_-	PRK05179, rpsM, 30S ribosomal protein S13; Validated
GCA_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	6	2561444-2561527	6	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	ACAGACAATGCAAGTTGGGGTGTGG	25	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|250aa|up_0|LR134086.1_2560428_2561178_+,NA|122aa|down_9|LR134086.1_2571780_2572146_-	NA|451aa|up_9|LR134086.1_2550948_2552301_+	COG2272, PnbA, Carboxylesterase type B [Lipid metabolism]	NA|396aa|up_8|LR134086.1_2552362_2553550_-	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|259aa|up_7|LR134086.1_2553943_2554720_-	COG0390, COG0390, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|221aa|up_6|LR134086.1_2554712_2555375_-	COG4619, COG4619, ABC-type uncharacterized transport system, ATPase component [General function prediction only]	NA|359aa|up_5|LR134086.1_2555720_2556797_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|89aa|up_4|LR134086.1_2557151_2557418_-	COG4115, COG4115, Uncharacterized protein conserved in bacteria [Function unknown]	NA|86aa|up_3|LR134086.1_2557417_2557675_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|152aa|up_2|LR134086.1_2558033_2558489_+	COG4808, COG4808, Uncharacterized protein conserved in bacteria [Function unknown]	NA|526aa|up_1|LR134086.1_2558656_2560234_-	COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport and metabolism]	NA|250aa|up_0|LR134086.1_2560428_2561178_+	NA	NA|398aa|down_0|LR134086.1_2561643_2562837_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|250aa|down_1|LR134086.1_2562848_2563598_-	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|272aa|down_2|LR134086.1_2563590_2564406_-	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|290aa|down_3|LR134086.1_2564402_2565272_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|312aa|down_4|LR134086.1_2565268_2566204_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|533aa|down_5|LR134086.1_2566216_2567815_-	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|434aa|down_6|LR134086.1_2567957_2569259_-	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|273aa|down_7|LR134086.1_2569251_2570070_-	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|274aa|down_8|LR134086.1_2570080_2570902_-	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|122aa|down_9|LR134086.1_2571780_2572146_-	NA
GCA_900635245.1_40415_C02	LR134086	Staphylococcus aureus strain NCTC13142 genome assembly, chromosome: 1	7	2687289-2687370	7	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	1	2687313-2687346	LR134086.1_1023234-1023201	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|166aa|up_8|LR134086.1_2677698_2678196_-,NA|107aa|up_1|LR134086.1_2686300_2686621_+,NA	NA|498aa|up_9|LR134086.1_2676212_2677706_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|166aa|up_8|LR134086.1_2677698_2678196_-	NA	NA|256aa|up_7|LR134086.1_2678361_2679129_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|604aa|up_6|LR134086.1_2679489_2681301_-	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|163aa|up_5|LR134086.1_2681815_2682304_-	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain	NA|234aa|up_4|LR134086.1_2682579_2683281_-	cd13925, RPF, core lysozyme-like domain of resuscitation-promoting factor proteins	NA|352aa|up_3|LR134086.1_2683888_2684944_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|196aa|up_2|LR134086.1_2685335_2685923_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|107aa|up_1|LR134086.1_2686300_2686621_+	NA	NA|77aa|up_0|LR134086.1_2686840_2687071_+	COG4224, COG4224, Uncharacterized protein conserved in bacteria [Function unknown]	NA|126aa|down_0|LR134086.1_2687474_2687852_-	COG3607, COG3607, Predicted lactoylglutathione lyase [General function prediction only]	NA|274aa|down_1|LR134086.1_2687868_2688690_-	cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs	NA|100aa|down_2|LR134086.1_2688708_2689008_-	COG4367, COG4367, Uncharacterized protein conserved in bacteria [Function unknown]	NA|186aa|down_3|LR134086.1_2689138_2689696_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|235aa|down_4|LR134086.1_2689688_2690393_+	cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs	NA|337aa|down_5|LR134086.1_2690490_2691501_+	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|277aa|down_6|LR134086.1_2691520_2692351_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|342aa|down_7|LR134086.1_2692491_2693517_+	cd05289, MDR_like_2, alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases	NA|297aa|down_8|LR134086.1_2693737_2694628_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|447aa|down_9|LR134086.1_2694727_2696068_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]
