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_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	1	639808-639895	1	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	AAAAGAAATTCTACAGGCAATGCAAGTTGG	30	1	1	639838-639865	NZ_CP007659.1_1993644-1993617	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|34aa|up_5|NZ_CP007659.1_634234_634336_+,NA|36aa|down_5|NZ_CP007659.1_644804_644912_+	NA|359aa|up_9|NZ_CP007659.1_630781_631858_+	TIGR01220, phosphomevalonate_kinase, phosphomevalonate kinase, ERG8-type, Gram-positive branch	NA|114aa|up_8|NZ_CP007659.1_632034_632376_+	pfam07293, DUF1450, Protein of unknown function (DUF1450)	NA|441aa|up_7|NZ_CP007659.1_632427_633750_-	PRK07251, PRK07251, FAD-containing oxidoreductase	NA|147aa|up_6|NZ_CP007659.1_633736_634177_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|34aa|up_5|NZ_CP007659.1_634234_634336_+	NA	NA|465aa|up_4|NZ_CP007659.1_634800_636195_+	pfam04740, LXG, LXG domain of WXG superfamily	NA|212aa|up_3|NZ_CP007659.1_636195_636831_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|207aa|up_2|NZ_CP007659.1_636877_637498_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|211aa|up_1|NZ_CP007659.1_637637_638270_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|313aa|up_0|NZ_CP007659.1_638717_639656_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|down_0|NZ_CP007659.1_640153_640690_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|down_1|NZ_CP007659.1_640858_641335_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|down_2|NZ_CP007659.1_641374_642670_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|down_3|NZ_CP007659.1_642697_643219_+	pfam08741, YwhD, YwhD family	NA|337aa|down_4|NZ_CP007659.1_643717_644728_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|down_5|NZ_CP007659.1_644804_644912_+	NA	NA|128aa|down_6|NZ_CP007659.1_645037_645421_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|down_7|NZ_CP007659.1_645417_647079_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|down_8|NZ_CP007659.1_647412_648048_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|276aa|down_9|NZ_CP007659.1_648480_649308_+	cd01143, YvrC, Periplasmic binding protein YvrC
GCF_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	2	924029-924113	2	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	TTTTCGAAATTCTCTGTGTTTGGGCCC	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA,NA	NA|192aa|up_9|NZ_CP007659.1_910400_910976_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|up_8|NZ_CP007659.1_910980_911505_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|up_7|NZ_CP007659.1_911520_912096_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|up_6|NZ_CP007659.1_912255_915732_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|up_5|NZ_CP007659.1_915732_919386_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|up_4|NZ_CP007659.1_919549_920452_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]	NA|130aa|up_3|NZ_CP007659.1_920776_921166_+	PRK13673, PRK13673, hypothetical protein; Provisional	NA|439aa|up_2|NZ_CP007659.1_921336_922653_-	PRK13512, PRK13512, coenzyme A disulfide reductase; Provisional	NA|275aa|up_1|NZ_CP007659.1_922704_923529_-	cd07516, HAD_Pase, phosphatase, similar to Escherichia coli Cof and Thermotoga maritima TM0651; belongs to the haloacid dehalogenase-like superfamily	NA|103aa|up_0|NZ_CP007659.1_923642_923951_+	COG2151, PaaD, Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]	NA|605aa|down_0|NZ_CP007659.1_924605_926420_+	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|870aa|down_1|NZ_CP007659.1_926623_929233_+	TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB	NA|290aa|down_2|NZ_CP007659.1_929291_930161_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|382aa|down_3|NZ_CP007659.1_930270_931416_+	COG0119, LeuA, Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]	NA|214aa|down_4|NZ_CP007659.1_931399_932041_+	COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]	NA|374aa|down_5|NZ_CP007659.1_932033_933155_+	cd17325, MFS_MdtG_SLC18_like, bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily of transporters	NA|172aa|down_6|NZ_CP007659.1_933132_933648_+	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|145aa|down_7|NZ_CP007659.1_933958_934393_+	pfam03642, MAP, MAP domain	NA|62aa|down_8|NZ_CP007659.1_934649_934835_-	pfam11151, DUF2929, Protein of unknown function (DUF2929)	NA|314aa|down_9|NZ_CP007659.1_935129_936071_+	PRK09352, PRK09352, beta-ketoacyl-ACP synthase 3
GCF_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	3	1993526-1993615	3	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,RT,DinG,csa3,WYL	Unclear	CCCCAACTTGCATTGCCTGTAGAATTTCTTTT	32	1	3	1993558-1993583|1993558-1993583|1993558-1993583	NZ_CP007659.1_809738-809763|NZ_CP007659.1_1995018-1995043|NZ_CP007659.1_2348280-2348305	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|92aa|up_6|NZ_CP007659.1_1987772_1988048_+,NA|129aa|up_1|NZ_CP007659.1_1992030_1992417_-,NA|138aa|down_1|NZ_CP007659.1_1995337_1995751_-,NA|37aa|down_2|NZ_CP007659.1_1995779_1995890_-,NA|31aa|down_6|NZ_CP007659.1_1998895_1998988_-	NA|419aa|up_9|NZ_CP007659.1_1985695_1986952_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NZ_CP007659.1_1986954_1987155_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NZ_CP007659.1_1987301_1987766_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NZ_CP007659.1_1987772_1988048_+	NA	NA|406aa|up_5|NZ_CP007659.1_1988325_1989543_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NZ_CP007659.1_1989655_1990285_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|NZ_CP007659.1_1990274_1991318_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NZ_CP007659.1_1991314_1992016_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NZ_CP007659.1_1992030_1992417_-	NA	NA|253aa|up_0|NZ_CP007659.1_1992633_1993392_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NZ_CP007659.1_1993920_1994907_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NZ_CP007659.1_1995337_1995751_-	NA	NA|37aa|down_2|NZ_CP007659.1_1995779_1995890_-	NA	NA|244aa|down_3|NZ_CP007659.1_1995975_1996707_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NZ_CP007659.1_1996708_1998022_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NZ_CP007659.1_1998313_1998814_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NZ_CP007659.1_1998895_1998988_-	NA	DEDDh|185aa|down_7|NZ_CP007659.1_1999203_1999758_+	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|NZ_CP007659.1_1999825_2000896_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NZ_CP007659.1_2001142_2001673_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	4	2321958-2322082	4	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_7|NZ_CP007659.1_2314028_2314307_+,NA|61aa|up_1|NZ_CP007659.1_2320880_2321063_-,NA|60aa|up_0|NZ_CP007659.1_2321712_2321892_-,NA	NA|809aa|up_9|NZ_CP007659.1_2309815_2312242_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_8|NZ_CP007659.1_2312301_2313156_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|93aa|up_7|NZ_CP007659.1_2314028_2314307_+	NA	NA|506aa|up_6|NZ_CP007659.1_2314316_2315834_+	cd04949, GT4_GtfA-like, accessory Sec system glycosyltransferase GtfA and similar proteins	NA|272aa|up_5|NZ_CP007659.1_2316066_2316882_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_4|NZ_CP007659.1_2317176_2317602_+	pfam03642, MAP, MAP domain	NA|235aa|up_3|NZ_CP007659.1_2317980_2318685_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_2|NZ_CP007659.1_2318721_2320386_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|61aa|up_1|NZ_CP007659.1_2320880_2321063_-	NA	NA|60aa|up_0|NZ_CP007659.1_2321712_2321892_-	NA	NA|133aa|down_0|NZ_CP007659.1_2322480_2322879_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_1|NZ_CP007659.1_2322892_2323330_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|268aa|down_2|NZ_CP007659.1_2323569_2324373_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_3|NZ_CP007659.1_2324377_2325184_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_4|NZ_CP007659.1_2325173_2326034_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_5|NZ_CP007659.1_2326030_2326840_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|123aa|down_6|NZ_CP007659.1_2327377_2327746_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|315aa|down_7|NZ_CP007659.1_2327762_2328707_-	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|130aa|down_8|NZ_CP007659.1_2328781_2329171_-	PRK05309, PRK05309, 30S ribosomal protein S11; Validated	NA|122aa|down_9|NZ_CP007659.1_2329194_2329560_-	PRK05179, rpsM, 30S ribosomal protein S13; Validated
GCF_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	5	2564456-2564539	5	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|NZ_CP007659.1_2563440_2564190_+,NA|122aa|down_9|NZ_CP007659.1_2574792_2575158_-	NA|451aa|up_9|NZ_CP007659.1_2553960_2555313_+	COG2272, PnbA, Carboxylesterase type B [Lipid metabolism]	NA|396aa|up_8|NZ_CP007659.1_2555374_2556562_-	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|259aa|up_7|NZ_CP007659.1_2556955_2557732_-	COG0390, COG0390, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|221aa|up_6|NZ_CP007659.1_2557724_2558387_-	COG4619, COG4619, ABC-type uncharacterized transport system, ATPase component [General function prediction only]	NA|359aa|up_5|NZ_CP007659.1_2558732_2559809_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|89aa|up_4|NZ_CP007659.1_2560163_2560430_-	COG4115, COG4115, Uncharacterized protein conserved in bacteria [Function unknown]	NA|86aa|up_3|NZ_CP007659.1_2560429_2560687_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|152aa|up_2|NZ_CP007659.1_2561045_2561501_+	COG4808, COG4808, Uncharacterized protein conserved in bacteria [Function unknown]	NA|526aa|up_1|NZ_CP007659.1_2561668_2563246_-	COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport and metabolism]	NA|250aa|up_0|NZ_CP007659.1_2563440_2564190_+	NA	NA|398aa|down_0|NZ_CP007659.1_2564655_2565849_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|250aa|down_1|NZ_CP007659.1_2565860_2566610_-	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|NZ_CP007659.1_2566602_2567418_-	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|NZ_CP007659.1_2567414_2568284_-	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|NZ_CP007659.1_2568280_2569216_-	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|NZ_CP007659.1_2569228_2570827_-	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|434aa|down_6|NZ_CP007659.1_2570969_2572271_-	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|273aa|down_7|NZ_CP007659.1_2572263_2573082_-	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|274aa|down_8|NZ_CP007659.1_2573092_2573914_-	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|122aa|down_9|NZ_CP007659.1_2574792_2575158_-	NA
GCF_000695215.1_ASM69521v1	NZ_CP007659	Staphylococcus aureus subsp. aureus strain H-EMRSA-15 chromosome, complete genome	6	2690280-2690361	6	CRISPRCasFinder	no		cas3,DEDDh,RT,DinG,csa3,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	1	2690304-2690337	NZ_CP007659.1_1023761-1023728	NA	1	1	Orphan	cas3,DEDDh,RT,DinG,csa3,WYL	NA|163aa|up_9|NZ_CP007659.1_2680689_2681178_-,NA|43aa|up_3|NZ_CP007659.1_2688061_2688190_-,NA|167aa|up_1|NZ_CP007659.1_2689111_2689612_+,NA	NA|163aa|up_9|NZ_CP007659.1_2680689_2681178_-	NA	NA|256aa|up_8|NZ_CP007659.1_2681352_2682120_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|604aa|up_7|NZ_CP007659.1_2682480_2684292_-	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|163aa|up_6|NZ_CP007659.1_2684806_2685295_-	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain	NA|234aa|up_5|NZ_CP007659.1_2685570_2686272_-	cd13925, RPF, core lysozyme-like domain of resuscitation-promoting factor proteins	NA|352aa|up_4|NZ_CP007659.1_2686879_2687935_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|43aa|up_3|NZ_CP007659.1_2688061_2688190_-	NA	NA|190aa|up_2|NZ_CP007659.1_2688344_2688914_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|167aa|up_1|NZ_CP007659.1_2689111_2689612_+	NA	NA|77aa|up_0|NZ_CP007659.1_2689831_2690062_+	COG4224, COG4224, Uncharacterized protein conserved in bacteria [Function unknown]	NA|126aa|down_0|NZ_CP007659.1_2690465_2690843_-	COG3607, COG3607, Predicted lactoylglutathione lyase [General function prediction only]	NA|274aa|down_1|NZ_CP007659.1_2690859_2691681_-	cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs	NA|100aa|down_2|NZ_CP007659.1_2691699_2691999_-	COG4367, COG4367, Uncharacterized protein conserved in bacteria [Function unknown]	NA|186aa|down_3|NZ_CP007659.1_2692129_2692687_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|235aa|down_4|NZ_CP007659.1_2692679_2693384_+	cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs	NA|337aa|down_5|NZ_CP007659.1_2693481_2694492_+	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|277aa|down_6|NZ_CP007659.1_2694511_2695342_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|342aa|down_7|NZ_CP007659.1_2695482_2696508_+	cd05289, MDR_like_2, alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases	NA|297aa|down_8|NZ_CP007659.1_2696728_2697619_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|447aa|down_9|NZ_CP007659.1_2697718_2699059_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]
