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_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	1	285126-285263	1	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	TGCAAGTTGGCGGGGCCCCAACATAGA	27	2	34	285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285153-285180|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236|285208-285236	LR134193.1_401320-401347|LR134193.1_625103-625130|LR134193.1_795066-795039|LR134193.1_1035098-1035071|LR134193.1_1325157-1325184|LR134193.1_1413931-1413904|LR134193.1_1657263-1657236|LR134193.1_1871735-1871762|LR134193.1_1980527-1980500|LR134193.1_2333791-2333764|LR134193.1_2675774-2675801|LR134193.1_361227-361254|LR134193.1_909364-909337|LR134193.1_1111327-1111354|LR134193.1_1776729-1776756|LR134193.1_1989877-1989850|LR134193.1_2344599-2344572|LR134193.1_2792665-2792638|LR134193.1_285097-285125|LR134193.1_804046-804018|LR134193.1_1009123-1009095|LR134193.1_2514048-2514020|LR134193.1_2514104-2514076|LR134193.1_2182500-2182528|LR134193.1_361171-361199|LR134193.1_625215-625243|LR134193.1_1035156-1035128|LR134193.1_1111269-1111297|LR134193.1_1325215-1325243|LR134193.1_1413989-1413961|LR134193.1_1657208-1657180|LR134193.1_1657321-1657293|LR134193.1_1671796-1671768|LR134193.1_1979185-1979157	NA	2	2	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA,NA|131aa|down_5|LR134193.1_290363_290756_+	NA|574aa|up_9|LR134193.1_272517_274239_+	pfam18674, TarS_C1, TarS beta-glycosyltransferase C-terminal domain 1	NA|225aa|up_8|LR134193.1_274382_275057_+	PRK13276, PRK13276, iron-sulfur cluster repair di-iron protein ScdA	NA|585aa|up_7|LR134193.1_275302_277057_+	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms]	NA|247aa|up_6|LR134193.1_277059_277800_+	PRK14084, PRK14084, DNA-binding response regulator	NA|146aa|up_5|LR134193.1_277918_278356_+	PRK04125, PRK04125, antiholin-like protein LrgA	NA|234aa|up_4|LR134193.1_278348_279050_+	PRK04288, PRK04288, antiholin-like protein LrgB; Provisional	NA|764aa|up_3|LR134193.1_279390_281682_+	COG3256, NorB, Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]	NA|235aa|up_2|LR134193.1_281907_282612_-	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|264aa|up_1|LR134193.1_282760_283552_+	COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate transport and metabolism]	NA|479aa|up_0|LR134193.1_283567_285004_+	PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed	NA|254aa|down_0|LR134193.1_285498_286260_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|305aa|down_1|LR134193.1_286510_287425_-	TIGR02152, Putative_ribokinase, ribokinase	NA|135aa|down_2|LR134193.1_287452_287857_-	PRK11797, PRK11797, D-ribose pyranase; Provisional	NA|294aa|down_3|LR134193.1_287871_288753_-	pfam06800, Sugar_transport, Sugar transport protein	NA|333aa|down_4|LR134193.1_288984_289983_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|131aa|down_5|LR134193.1_290363_290756_+	NA	NA|459aa|down_6|LR134193.1_290883_292260_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|331aa|down_7|LR134193.1_292493_293486_+	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane]	NA|316aa|down_8|LR134193.1_293811_294759_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|220aa|down_9|LR134193.1_294810_295470_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]
GCA_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	2	625111-625198	2	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	AAAAGAAATTCTACAGGCAATGCAAGTTGG	30	1	1	625141-625168	LR134193.1_1979146-1979119	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA,NA|36aa|down_5|LR134193.1_630107_630215_+	NA|328aa|up_9|LR134193.1_615088_616072_+	COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid metabolism]	NA|359aa|up_8|LR134193.1_616084_617161_+	TIGR01220, phosphomevalonate_kinase, phosphomevalonate kinase, ERG8-type, Gram-positive branch	NA|114aa|up_7|LR134193.1_617337_617679_+	pfam07293, DUF1450, Protein of unknown function (DUF1450)	NA|441aa|up_6|LR134193.1_617730_619053_-	PRK07251, PRK07251, FAD-containing oxidoreductase	NA|147aa|up_5|LR134193.1_619039_619480_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|465aa|up_4|LR134193.1_620103_621498_+	pfam04740, LXG, LXG domain of WXG superfamily	NA|211aa|up_3|LR134193.1_621501_622134_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|207aa|up_2|LR134193.1_622180_622801_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|211aa|up_1|LR134193.1_622940_623573_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|313aa|up_0|LR134193.1_624020_624959_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|down_0|LR134193.1_625456_625993_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|down_1|LR134193.1_626161_626638_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|down_2|LR134193.1_626677_627973_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|169aa|down_3|LR134193.1_628015_628522_+	pfam08741, YwhD, YwhD family	NA|337aa|down_4|LR134193.1_629020_630031_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|down_5|LR134193.1_630107_630215_+	NA	NA|139aa|down_6|LR134193.1_630307_630724_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|down_7|LR134193.1_630720_632382_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|down_8|LR134193.1_632715_633351_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_9|LR134193.1_633723_634611_+	cd01143, YvrC, Periplasmic binding protein YvrC
GCA_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	4	1979028-1979117	4	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,RT,DinG,csa3,WYL	Unclear	CCCCAACTTGCATTGCCTGTAGAATTTCTTTT	32	1	3	1979060-1979085|1979060-1979085|1979060-1979085	LR134193.1_795059-795084|LR134193.1_1980520-1980545|LR134193.1_2333784-2333809	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|92aa|up_6|LR134193.1_1973274_1973550_+,NA|129aa|up_1|LR134193.1_1977532_1977919_-,NA|138aa|down_1|LR134193.1_1980839_1981253_-	NA|416aa|up_9|LR134193.1_1971197_1972445_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|69aa|up_8|LR134193.1_1972456_1972663_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|LR134193.1_1972803_1973268_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|LR134193.1_1973274_1973550_+	NA	NA|406aa|up_5|LR134193.1_1973827_1975045_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|LR134193.1_1975157_1975787_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|LR134193.1_1975776_1976820_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|LR134193.1_1976816_1977518_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|LR134193.1_1977532_1977919_-	NA	NA|253aa|up_0|LR134193.1_1978135_1978894_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|LR134193.1_1979422_1980409_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|LR134193.1_1980839_1981253_-	NA	NA|244aa|down_2|LR134193.1_1981477_1982209_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_3|LR134193.1_1982210_1983524_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_4|LR134193.1_1983815_1984316_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	DEDDh|185aa|down_5|LR134193.1_1984705_1985260_+	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_6|LR134193.1_1985327_1986398_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_7|LR134193.1_1986644_1987175_-	pfam11667, DUF3267, Putative zincin peptidase	NA|454aa|down_8|LR134193.1_1987344_1988706_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|316aa|down_9|LR134193.1_1988786_1989734_-	PRK13337, PRK13337, putative lipid kinase; Reviewed
GCA_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	5	2307462-2307586	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|LR134193.1_2299532_2299811_+,NA	NA|283aa|up_9|LR134193.1_2293577_2294426_-	cd19133, AKR_AKR5F1, the AKR5F family of aldo-keto reductase (AKR)	NA|139aa|up_8|LR134193.1_2294495_2294912_-	cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB	NA|809aa|up_7|LR134193.1_2295319_2297746_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_6|LR134193.1_2297805_2298660_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|93aa|up_5|LR134193.1_2299532_2299811_+	NA	NA|506aa|up_4|LR134193.1_2299820_2301338_+	cd04949, GT4_GtfA-like, accessory Sec system glycosyltransferase GtfA and similar proteins	NA|272aa|up_3|LR134193.1_2301570_2302386_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_2|LR134193.1_2302680_2303106_+	pfam03642, MAP, MAP domain	NA|235aa|up_1|LR134193.1_2303484_2304189_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_0|LR134193.1_2304225_2305890_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|133aa|down_0|LR134193.1_2307984_2308383_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_1|LR134193.1_2308396_2308834_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|268aa|down_2|LR134193.1_2309073_2309877_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_3|LR134193.1_2309881_2310688_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_4|LR134193.1_2310677_2311538_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_5|LR134193.1_2311534_2312344_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|123aa|down_6|LR134193.1_2312881_2313250_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|315aa|down_7|LR134193.1_2313266_2314211_-	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|130aa|down_8|LR134193.1_2314285_2314675_-	PRK05309, PRK05309, 30S ribosomal protein S11; Validated	NA|122aa|down_9|LR134193.1_2314698_2315064_-	PRK05179, rpsM, 30S ribosomal protein S13; Validated
GCA_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	6	2549961-2550044	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|LR134193.1_2548945_2549695_+,NA|122aa|down_9|LR134193.1_2560297_2560663_-	NA|451aa|up_9|LR134193.1_2539465_2540818_+	COG2272, PnbA, Carboxylesterase type B [Lipid metabolism]	NA|396aa|up_8|LR134193.1_2540879_2542067_-	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|259aa|up_7|LR134193.1_2542460_2543237_-	COG0390, COG0390, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|221aa|up_6|LR134193.1_2543229_2543892_-	COG4619, COG4619, ABC-type uncharacterized transport system, ATPase component [General function prediction only]	NA|359aa|up_5|LR134193.1_2544237_2545314_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|89aa|up_4|LR134193.1_2545668_2545935_-	COG4115, COG4115, Uncharacterized protein conserved in bacteria [Function unknown]	NA|86aa|up_3|LR134193.1_2545934_2546192_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|152aa|up_2|LR134193.1_2546550_2547006_+	COG4808, COG4808, Uncharacterized protein conserved in bacteria [Function unknown]	NA|526aa|up_1|LR134193.1_2547173_2548751_-	COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport and metabolism]	NA|250aa|up_0|LR134193.1_2548945_2549695_+	NA	NA|398aa|down_0|LR134193.1_2550160_2551354_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|250aa|down_1|LR134193.1_2551365_2552115_-	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|LR134193.1_2552107_2552923_-	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|LR134193.1_2552919_2553789_-	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|LR134193.1_2553785_2554721_-	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|LR134193.1_2554733_2556332_-	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|434aa|down_6|LR134193.1_2556474_2557776_-	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|273aa|down_7|LR134193.1_2557768_2558587_-	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|274aa|down_8|LR134193.1_2558597_2559419_-	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|122aa|down_9|LR134193.1_2560297_2560663_-	NA
GCA_900635905.1_35910_F01	LR134193	Staphylococcus aureus strain NCTC13616 genome assembly, chromosome: 1	7	2675790-2675871	7	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	1	2675814-2675847	LR134193.1_1009082-1009049	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|151aa|up_8|LR134193.1_2666196_2666649_-,NA|107aa|up_1|LR134193.1_2674801_2675122_+,NA	NA|498aa|up_9|LR134193.1_2664710_2666204_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|151aa|up_8|LR134193.1_2666196_2666649_-	NA	NA|256aa|up_7|LR134193.1_2666860_2667628_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|604aa|up_6|LR134193.1_2667988_2669800_-	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|163aa|up_5|LR134193.1_2670314_2670803_-	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain	NA|234aa|up_4|LR134193.1_2671078_2671780_-	cd13925, RPF, core lysozyme-like domain of resuscitation-promoting factor proteins	NA|352aa|up_3|LR134193.1_2672388_2673444_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|196aa|up_2|LR134193.1_2673835_2674423_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|107aa|up_1|LR134193.1_2674801_2675122_+	NA	NA|77aa|up_0|LR134193.1_2675341_2675572_+	COG4224, COG4224, Uncharacterized protein conserved in bacteria [Function unknown]	NA|126aa|down_0|LR134193.1_2675975_2676353_-	COG3607, COG3607, Predicted lactoylglutathione lyase [General function prediction only]	NA|274aa|down_1|LR134193.1_2676369_2677191_-	cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs	NA|100aa|down_2|LR134193.1_2677209_2677509_-	COG4367, COG4367, Uncharacterized protein conserved in bacteria [Function unknown]	NA|186aa|down_3|LR134193.1_2677639_2678197_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|235aa|down_4|LR134193.1_2678189_2678894_+	cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs	NA|337aa|down_5|LR134193.1_2678991_2680002_+	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|277aa|down_6|LR134193.1_2680021_2680852_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|342aa|down_7|LR134193.1_2680992_2682018_+	cd05289, MDR_like_2, alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases	NA|297aa|down_8|LR134193.1_2682238_2683129_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|447aa|down_9|LR134193.1_2683228_2684569_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]
