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_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	1	170208-170292	1	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	2	170234-170266|170234-170266	NZ_CP022893.1_1693620-1693588|NZ_CP022893.1_1605266-1605298	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|402aa|up_9|NZ_CP022893.1_159353_160559_+,NA|68aa|down_0|NZ_CP022893.1_170353_170557_-	NA|402aa|up_9|NZ_CP022893.1_159353_160559_+	NA	NA|402aa|up_8|NZ_CP022893.1_160559_161765_+	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|186aa|up_7|NZ_CP022893.1_161775_162333_+	COG2148, WcaJ, Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]	NA|296aa|up_6|NZ_CP022893.1_162332_163220_+	cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs	NA|421aa|up_5|NZ_CP022893.1_163273_164536_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|382aa|up_4|NZ_CP022893.1_164612_165758_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|109aa|up_3|NZ_CP022893.1_165822_166149_-	PRK13313, PRK13313, staphylobilin-forming heme oxygenase IsdI	NA|128aa|up_2|NZ_CP022893.1_166155_166539_-	pfam04304, DUF454, Protein of unknown function (DUF454)	NA|496aa|up_1|NZ_CP022893.1_166965_168453_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|320aa|up_0|NZ_CP022893.1_169099_170059_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|68aa|down_0|NZ_CP022893.1_170353_170557_-	NA	NA|171aa|down_1|NZ_CP022893.1_170735_171248_+	pfam14026, DUF4242, Protein of unknown function (DUF4242)	NA|247aa|down_2|NZ_CP022893.1_171589_172330_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|324aa|down_3|NZ_CP022893.1_172343_173315_+	cd13553, PBP2_NrtA_CpmA_like, Substrate binding domain of ABC-type nitrate/bicarbonate transporters, a member of the type 2 periplasmic binding fold superfamily	NA|254aa|down_4|NZ_CP022893.1_173311_174073_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|344aa|down_5|NZ_CP022893.1_174085_175117_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|120aa|down_6|NZ_CP022893.1_175333_175693_+	COG5609, COG5609, Uncharacterized conserved protein [Function unknown]	NA|342aa|down_7|NZ_CP022893.1_175866_176892_+	PRK07574, PRK07574, NAD-dependent formate dehydrogenase	NA|417aa|down_8|NZ_CP022893.1_177277_178528_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|2392aa|down_9|NZ_CP022893.1_178974_186150_+	PRK12467, PRK12467, peptide synthase; Provisional
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	2	429998-430099	2	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|70aa|up_8|NZ_CP022893.1_421557_421767_-,NA|128aa|up_6|NZ_CP022893.1_422591_422975_-,NA|33aa|up_0|NZ_CP022893.1_429222_429321_+,NA|221aa|down_1|NZ_CP022893.1_431189_431852_-,NA|179aa|down_7|NZ_CP022893.1_437943_438480_-	NA|84aa|up_9|NZ_CP022893.1_421267_421519_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NZ_CP022893.1_421557_421767_-	NA	NA|194aa|up_7|NZ_CP022893.1_421944_422526_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NZ_CP022893.1_422591_422975_-	NA	NA|209aa|up_5|NZ_CP022893.1_423244_423871_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NZ_CP022893.1_424314_425838_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NZ_CP022893.1_425853_426423_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NZ_CP022893.1_426914_427670_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NZ_CP022893.1_427749_429138_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|33aa|up_0|NZ_CP022893.1_429222_429321_+	NA	NA|319aa|down_0|NZ_CP022893.1_430115_431072_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|221aa|down_1|NZ_CP022893.1_431189_431852_-	NA	NA|136aa|down_2|NZ_CP022893.1_431994_432402_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NZ_CP022893.1_432914_433493_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NZ_CP022893.1_433492_434761_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NZ_CP022893.1_434798_436265_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NZ_CP022893.1_436289_437831_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NZ_CP022893.1_437943_438480_-	NA	NA|235aa|down_8|NZ_CP022893.1_438871_439576_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NZ_CP022893.1_439974_440247_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	3	787383-787465	3	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|69aa|up_9|NZ_CP022893.1_773996_774203_+,NA|34aa|down_1|NZ_CP022893.1_789120_789222_+,NA|52aa|down_9|NZ_CP022893.1_798908_799064_+	NA|69aa|up_9|NZ_CP022893.1_773996_774203_+	NA	NA|237aa|up_8|NZ_CP022893.1_774290_775001_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NZ_CP022893.1_774984_775989_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NZ_CP022893.1_776462_778403_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NZ_CP022893.1_778672_780556_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NZ_CP022893.1_780567_782349_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NZ_CP022893.1_782570_783548_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NZ_CP022893.1_783540_785055_+	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|353aa|up_1|NZ_CP022893.1_785294_786353_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NZ_CP022893.1_786691_787234_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NZ_CP022893.1_788112_789030_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NZ_CP022893.1_789120_789222_+	NA	NA|535aa|down_2|NZ_CP022893.1_789408_791013_+	pfam13751, DDE_Tnp_1_6, Transposase DDE domain	NA|502aa|down_3|NZ_CP022893.1_791139_792645_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_4|NZ_CP022893.1_792985_793486_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_5|NZ_CP022893.1_793505_794372_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|133aa|down_6|NZ_CP022893.1_795172_795571_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_7|NZ_CP022893.1_795533_797639_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_8|NZ_CP022893.1_797756_798728_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|52aa|down_9|NZ_CP022893.1_798908_799064_+	NA
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	4	830170-830248	4	CRISPRCasFinder	no	cas3	cas3,DEDDh,csa3,DinG,RT,WYL	Unclear	TGTAGAATTTCTTTTCGAAATTCT	24	1	3	830194-830224|830194-830224|830194-830224	NZ_CP022893.1_295140-295110|NZ_CP022893.1_295085-295055|NZ_CP022893.1_1386469-1386439	NA	1	1	Unclear	cas3,DEDDh,csa3,DinG,RT,WYL	NA|35aa|up_7|NZ_CP022893.1_821046_821151_+,NA|36aa|up_5|NZ_CP022893.1_822583_822691_+,NA	NA|191aa|up_9|NZ_CP022893.1_817487_818060_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_8|NZ_CP022893.1_818473_821005_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_7|NZ_CP022893.1_821046_821151_+	NA	NA|370aa|up_6|NZ_CP022893.1_821319_822430_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|36aa|up_5|NZ_CP022893.1_822583_822691_+	NA	NA|280aa|up_4|NZ_CP022893.1_822838_823678_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NZ_CP022893.1_823851_824502_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NZ_CP022893.1_824498_824735_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NZ_CP022893.1_825003_826989_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NZ_CP022893.1_826996_829843_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NZ_CP022893.1_830506_831439_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NZ_CP022893.1_831444_832284_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NZ_CP022893.1_832291_832777_+	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|down_3|NZ_CP022893.1_832784_834224_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|NZ_CP022893.1_834290_835226_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|NZ_CP022893.1_836111_837023_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|NZ_CP022893.1_837019_838015_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|NZ_CP022893.1_838125_839070_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|NZ_CP022893.1_839633_840221_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_9|NZ_CP022893.1_840463_841366_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	5	835625-835894	1	CRT	no	cas3	cas3,DEDDh,csa3,DinG,RT,WYL	Unclear	TTCTCTGTGTTGGGGCCCACACCCCAACTNGCATTG	36	4	40	835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835661-835682|835719-835741|835719-835741|835719-835741|835719-835741|835719-835741|835719-835741|835719-835741|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835778-835799|835836-835858|835836-835858|835836-835858|835836-835858|835836-835858|835836-835858|835836-835858	NZ_CP022893.1_170216-170195|NZ_CP022893.1_295056-295035|NZ_CP022893.1_295166-295145|NZ_CP022893.1_660692-660671|NZ_CP022893.1_786424-786445|NZ_CP022893.1_897527-897548|NZ_CP022893.1_1086551-1086530|NZ_CP022893.1_1406320-1406341|NZ_CP022893.1_1420875-1420854|NZ_CP022893.1_1693696-1693717|NZ_CP022893.1_1386381-1386360|NZ_CP022893.1_1386614-1386593|NZ_CP022893.1_2176832-2176811|NZ_CP022893.1_787396-787374|NZ_CP022893.1_787674-787652|NZ_CP022893.1_1086493-1086471|NZ_CP022893.1_1693579-1693601|NZ_CP022893.1_2401671-2401693|NZ_CP022893.1_984238-984216|NZ_CP022893.1_1605307-1605285|NZ_CP022893.1_170216-170195|NZ_CP022893.1_295056-295035|NZ_CP022893.1_295166-295145|NZ_CP022893.1_660692-660671|NZ_CP022893.1_786424-786445|NZ_CP022893.1_897527-897548|NZ_CP022893.1_1086551-1086530|NZ_CP022893.1_1406320-1406341|NZ_CP022893.1_1420875-1420854|NZ_CP022893.1_1693696-1693717|NZ_CP022893.1_1386381-1386360|NZ_CP022893.1_1386614-1386593|NZ_CP022893.1_2176832-2176811|NZ_CP022893.1_787396-787374|NZ_CP022893.1_787674-787652|NZ_CP022893.1_1086493-1086471|NZ_CP022893.1_1693579-1693601|NZ_CP022893.1_2401671-2401693|NZ_CP022893.1_984238-984216|NZ_CP022893.1_1605307-1605285	NA	4	4	Unclear	cas3,DEDDh,csa3,DinG,RT,WYL	NA,NA	NA|280aa|up_9|NZ_CP022893.1_822838_823678_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_CP022893.1_823851_824502_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_CP022893.1_824498_824735_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_CP022893.1_825003_826989_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_CP022893.1_826996_829843_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP022893.1_830506_831439_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP022893.1_831444_832284_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP022893.1_832291_832777_+	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_CP022893.1_832784_834224_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NZ_CP022893.1_834290_835226_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP022893.1_836111_837023_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP022893.1_837019_838015_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP022893.1_838125_839070_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP022893.1_839633_840221_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NZ_CP022893.1_840463_841366_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NZ_CP022893.1_842068_842698_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NZ_CP022893.1_843398_844412_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NZ_CP022893.1_844464_845475_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NZ_CP022893.1_845613_846804_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NZ_CP022893.1_846925_847687_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	6	897454-897535	5	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	1	897478-897511	NZ_CP022893.1_1693588-1693621	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|38aa|up_1|NZ_CP022893.1_896356_896470_+,NA	NA|206aa|up_9|NZ_CP022893.1_891210_891828_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_8|NZ_CP022893.1_891982_892477_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|NZ_CP022893.1_892875_893298_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|NZ_CP022893.1_893445_894162_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|NZ_CP022893.1_894244_894784_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|NZ_CP022893.1_894934_895255_-	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|119aa|up_3|NZ_CP022893.1_895398_895755_+	cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC	NA|127aa|up_2|NZ_CP022893.1_895912_896293_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|NZ_CP022893.1_896356_896470_+	NA	NA|293aa|up_0|NZ_CP022893.1_896471_897350_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_CP022893.1_898145_898532_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_CP022893.1_898524_898821_+	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|342aa|down_2|NZ_CP022893.1_899070_900096_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NZ_CP022893.1_900088_900784_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NZ_CP022893.1_900801_901623_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|NZ_CP022893.1_901976_902171_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|NZ_CP022893.1_902404_903256_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|NZ_CP022893.1_903583_904345_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|NZ_CP022893.1_904442_905750_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_9|NZ_CP022893.1_905855_907106_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	7	984238-984319	6	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	ACAATGCAAGTTGGGGTGGGGGCC	24	1	5	984262-984295|984262-984295|984262-984295|984262-984295|984262-984295	NZ_CP022893.1_830202-830169|NZ_CP022893.1_1906637-1906604|NZ_CP022893.1_1294353-1294320|NZ_CP022893.1_1689214-1689247|NZ_CP022893.1_2870559-2870526	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA,NA|56aa|down_6|NZ_CP022893.1_992817_992985_-	NA|188aa|up_9|NZ_CP022893.1_973099_973663_-	COG4512, AgrB, Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]	NA|45aa|up_8|NZ_CP022893.1_973898_974033_+	PRK14752, PRK14752, delta-lysin family phenol-soluble modulin	NA|262aa|up_7|NZ_CP022893.1_974632_975418_-	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|209aa|up_6|NZ_CP022893.1_975778_976405_-	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|403aa|up_5|NZ_CP022893.1_976601_977810_+	TIGR04526, predic_Ig_block, putative immunoglobulin-blocking virulence protein	NA|248aa|up_4|NZ_CP022893.1_977834_978578_-	pfam02517, Abi, CAAX protease self-immunity	NA|95aa|up_3|NZ_CP022893.1_978752_979037_+	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|539aa|up_2|NZ_CP022893.1_979112_980729_+	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|440aa|up_1|NZ_CP022893.1_981391_982711_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|436aa|up_0|NZ_CP022893.1_982788_984096_-	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|408aa|down_0|NZ_CP022893.1_984539_985763_-	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|391aa|down_1|NZ_CP022893.1_986101_987274_+	pfam00872, Transposase_mut, Transposase, Mutator family	NA|352aa|down_2|NZ_CP022893.1_987530_988586_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|339aa|down_3|NZ_CP022893.1_988607_989624_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|346aa|down_4|NZ_CP022893.1_990742_991780_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|235aa|down_5|NZ_CP022893.1_991973_992678_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|56aa|down_6|NZ_CP022893.1_992817_992985_-	NA	NA|62aa|down_7|NZ_CP022893.1_993054_993240_-	pfam00815, Histidinol_dh, Histidinol dehydrogenase	NA|285aa|down_8|NZ_CP022893.1_993456_994311_-	smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p	NA|239aa|down_9|NZ_CP022893.1_994322_995039_-	COG2932, COG2932, Predicted transcriptional regulator [Transcription]
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	8	1420867-1420951	7	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	1	1420893-1420925	NZ_CP022893.1_1693620-1693588	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA,NA	NA|190aa|up_9|NZ_CP022893.1_1411496_1412066_+	TIGR00482, Probable_nicotinate-nucleotide_adenylyltransferase, nicotinate (nicotinamide) nucleotide adenylyltransferase	NA|195aa|up_8|NZ_CP022893.1_1412055_1412640_+	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|118aa|up_7|NZ_CP022893.1_1412640_1412994_+	COG0799, COG0799, Uncharacterized homolog of plant Iojap protein [Function unknown]	NA|239aa|up_6|NZ_CP022893.1_1412996_1413713_+	pfam13649, Methyltransf_25, Methyltransferase domain	NA|229aa|up_5|NZ_CP022893.1_1413752_1414439_+	COG1555, ComEA, DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]	NA|154aa|up_4|NZ_CP022893.1_1414530_1414992_+	TIGR02571, putative_dCMP_deaminase, ComE operon protein 2	NA|716aa|up_3|NZ_CP022893.1_1415050_1417198_+	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|325aa|up_2|NZ_CP022893.1_1417254_1418229_+	PRK05574, holA, DNA polymerase III subunit delta; Reviewed	NA|84aa|up_1|NZ_CP022893.1_1418273_1418525_-	PRK00239, rpsT, 30S ribosomal protein S20; Reviewed	NA|608aa|up_0|NZ_CP022893.1_1418870_1420694_+	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|375aa|down_0|NZ_CP022893.1_1421259_1422384_+	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|326aa|down_1|NZ_CP022893.1_1422484_1423462_+	TIGR00331, Heat-inducible_transcription_repressor_HrcA, heat shock gene repressor HrcA	NA|209aa|down_2|NZ_CP022893.1_1423493_1424120_+	PRK14140, PRK14140, heat shock protein GrpE; Provisional	NA|611aa|down_3|NZ_CP022893.1_1424188_1426021_+	PRK00290, dnaK, molecular chaperone DnaK; Provisional	NA|380aa|down_4|NZ_CP022893.1_1426156_1427296_+	PRK14280, PRK14280, molecular chaperone DnaJ	NA|313aa|down_5|NZ_CP022893.1_1427299_1428238_+	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	NA|251aa|down_6|NZ_CP022893.1_1428239_1428992_+	COG1385, COG1385, Uncharacterized protein conserved in bacteria [Function unknown]	NA|449aa|down_7|NZ_CP022893.1_1428998_1430345_+	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|59aa|down_8|NZ_CP022893.1_1430637_1430814_+	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|228aa|down_9|NZ_CP022893.1_1431057_1431741_+	COG1030, NfeD, Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	9	2292136-2292216	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,csa3,DinG,RT,WYL	Type I-A	CAACTTTAGTTGTTAGGGGCTCTT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|77aa|up_5|NZ_CP022893.1_2287010_2287241_-,NA|364aa|up_0|NZ_CP022893.1_2291027_2292119_+,NA|35aa|down_0|NZ_CP022893.1_2292551_2292656_-,NA|53aa|down_2|NZ_CP022893.1_2293335_2293494_+	NA|237aa|up_9|NZ_CP022893.1_2282621_2283332_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP022893.1_2283452_2283896_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP022893.1_2284095_2284509_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP022893.1_2284965_2286339_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP022893.1_2287010_2287241_-	NA	NA|313aa|up_4|NZ_CP022893.1_2287271_2288210_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP022893.1_2288645_2289311_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP022893.1_2289462_2289783_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|326aa|up_1|NZ_CP022893.1_2289784_2290762_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP022893.1_2291027_2292119_+	NA	NA|35aa|down_0|NZ_CP022893.1_2292551_2292656_-	NA	NA|57aa|down_1|NZ_CP022893.1_2293172_2293343_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|down_2|NZ_CP022893.1_2293335_2293494_+	NA	NA|286aa|down_3|NZ_CP022893.1_2294151_2295009_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NZ_CP022893.1_2295076_2295859_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NZ_CP022893.1_2296090_2297896_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NZ_CP022893.1_2298576_2300115_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NZ_CP022893.1_2300149_2302282_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NZ_CP022893.1_2302293_2302728_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NZ_CP022893.1_2302727_2303834_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	10	2304457-2304542	9	CRISPRCasFinder	no	csa3	cas3,DEDDh,csa3,DinG,RT,WYL	Type I-A	CCAACTGATTTTTGCGTATCATTAGT	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|35aa|up_9|NZ_CP022893.1_2292551_2292656_-,NA|53aa|up_7|NZ_CP022893.1_2293335_2293494_+,NA	NA|35aa|up_9|NZ_CP022893.1_2292551_2292656_-	NA	NA|57aa|up_8|NZ_CP022893.1_2293172_2293343_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|up_7|NZ_CP022893.1_2293335_2293494_+	NA	NA|286aa|up_6|NZ_CP022893.1_2294151_2295009_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|up_5|NZ_CP022893.1_2295076_2295859_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|up_4|NZ_CP022893.1_2296090_2297896_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|up_3|NZ_CP022893.1_2298576_2300115_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_2|NZ_CP022893.1_2300149_2302282_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_1|NZ_CP022893.1_2302293_2302728_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_0|NZ_CP022893.1_2302727_2303834_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|down_0|NZ_CP022893.1_2311875_2313231_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_1|NZ_CP022893.1_2313257_2314190_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|down_2|NZ_CP022893.1_2314191_2315001_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|down_3|NZ_CP022893.1_2315189_2316098_-	cd09989, Arginase, Arginase family	NA|355aa|down_4|NZ_CP022893.1_2322338_2323403_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|158aa|down_5|NZ_CP022893.1_2325316_2325790_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|448aa|down_6|NZ_CP022893.1_2325888_2327232_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|228aa|down_7|NZ_CP022893.1_2327408_2328092_-	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|396aa|down_8|NZ_CP022893.1_2328110_2329298_-	cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc	NA|172aa|down_9|NZ_CP022893.1_2329341_2329857_-	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]
GCF_003354705.1_ASM335470v1	NZ_CP022893	Staphylococcus aureus strain 61 chromosome, complete genome	11	2412500-2412580	10	CRISPRCasFinder	no		cas3,DEDDh,csa3,DinG,RT,WYL	Orphan	TCTATGTTGGGGCCCCGCCAACTTG	25	1	12	2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555|2412525-2412555	NZ_CP022893.1_842913-842943|NZ_CP022893.1_70386-70416|NZ_CP022893.1_375014-374984|NZ_CP022893.1_660756-660726|NZ_CP022893.1_897789-897819|NZ_CP022893.1_1087899-1087869|NZ_CP022893.1_1406257-1406287|NZ_CP022893.1_1605254-1605224|NZ_CP022893.1_1693632-1693662|NZ_CP022893.1_1899674-1899704|NZ_CP022893.1_2401724-2401754|NZ_CP022893.1_2577269-2577299	NA	1	1	Orphan	cas3,DEDDh,csa3,DinG,RT,WYL	NA|55aa|up_9|NZ_CP022893.1_2403033_2403198_+,NA|106aa|up_8|NZ_CP022893.1_2403442_2403760_+,NA|84aa|up_5|NZ_CP022893.1_2408881_2409133_+,NA|62aa|up_0|NZ_CP022893.1_2412272_2412458_+,NA	NA|55aa|up_9|NZ_CP022893.1_2403033_2403198_+	NA	NA|106aa|up_8|NZ_CP022893.1_2403442_2403760_+	NA	NA|1056aa|up_7|NZ_CP022893.1_2403943_2407111_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP022893.1_2407227_2408493_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP022893.1_2408881_2409133_+	NA	NA|255aa|up_4|NZ_CP022893.1_2409124_2409889_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP022893.1_2410050_2410491_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_CP022893.1_2410483_2411695_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP022893.1_2411796_2412147_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|62aa|up_0|NZ_CP022893.1_2412272_2412458_+	NA	NA|341aa|down_0|NZ_CP022893.1_2412723_2413746_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_CP022893.1_2413765_2414365_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_CP022893.1_2414371_2414605_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_CP022893.1_2414610_2415057_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_CP022893.1_2415070_2415556_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_CP022893.1_2415552_2416812_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_CP022893.1_2416874_2417369_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_CP022893.1_2417370_2417877_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_CP022893.1_2417907_2418912_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_CP022893.1_2419081_2419687_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
