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_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	1	188335-188419	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	2	188361-188393|188361-188393	NZ_CP011685.1_1357305-1357337|NZ_CP011685.1_1445685-1445653	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|402aa|up_9|NZ_CP011685.1_177480_178686_+,NA|68aa|down_0|NZ_CP011685.1_188480_188684_-	NA|402aa|up_9|NZ_CP011685.1_177480_178686_+	NA	NA|402aa|up_8|NZ_CP011685.1_178686_179892_+	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|186aa|up_7|NZ_CP011685.1_179902_180460_+	COG2148, WcaJ, Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]	NA|296aa|up_6|NZ_CP011685.1_180459_181347_+	cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs	NA|421aa|up_5|NZ_CP011685.1_181400_182663_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|382aa|up_4|NZ_CP011685.1_182739_183885_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|109aa|up_3|NZ_CP011685.1_183949_184276_-	PRK13313, PRK13313, staphylobilin-forming heme oxygenase IsdI	NA|128aa|up_2|NZ_CP011685.1_184282_184666_-	pfam04304, DUF454, Protein of unknown function (DUF454)	NA|496aa|up_1|NZ_CP011685.1_185092_186580_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|320aa|up_0|NZ_CP011685.1_187226_188186_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|68aa|down_0|NZ_CP011685.1_188480_188684_-	NA	NA|171aa|down_1|NZ_CP011685.1_188862_189375_+	pfam14026, DUF4242, Protein of unknown function (DUF4242)	NA|247aa|down_2|NZ_CP011685.1_189716_190457_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|324aa|down_3|NZ_CP011685.1_190470_191442_+	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_CP011685.1_191438_192200_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|344aa|down_5|NZ_CP011685.1_192212_193244_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|120aa|down_6|NZ_CP011685.1_193460_193820_+	COG5609, COG5609, Uncharacterized conserved protein [Function unknown]	NA|342aa|down_7|NZ_CP011685.1_193993_195019_+	PRK07574, PRK07574, NAD-dependent formate dehydrogenase	NA|417aa|down_8|NZ_CP011685.1_195404_196655_+	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_CP011685.1_197101_204277_+	PRK12467, PRK12467, peptide synthase; Provisional
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	2	428060-428161	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|70aa|up_9|NZ_CP011685.1_417998_418208_-,NA|128aa|up_7|NZ_CP011685.1_419032_419416_-,NA|33aa|up_1|NZ_CP011685.1_425663_425762_+,NA|221aa|down_1|NZ_CP011685.1_429251_429914_-,NA|179aa|down_7|NZ_CP011685.1_436005_436542_-	NA|70aa|up_9|NZ_CP011685.1_417998_418208_-	NA	NA|194aa|up_8|NZ_CP011685.1_418385_418967_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_7|NZ_CP011685.1_419032_419416_-	NA	NA|209aa|up_6|NZ_CP011685.1_419685_420312_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_5|NZ_CP011685.1_420755_422279_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_4|NZ_CP011685.1_422294_422864_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_3|NZ_CP011685.1_423355_424111_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_2|NZ_CP011685.1_424190_425579_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|33aa|up_1|NZ_CP011685.1_425663_425762_+	NA	NA|440aa|up_0|NZ_CP011685.1_426424_427744_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|319aa|down_0|NZ_CP011685.1_428177_429134_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|221aa|down_1|NZ_CP011685.1_429251_429914_-	NA	NA|136aa|down_2|NZ_CP011685.1_430056_430464_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NZ_CP011685.1_430976_431555_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NZ_CP011685.1_431554_432823_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NZ_CP011685.1_432860_434327_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NZ_CP011685.1_434351_435893_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NZ_CP011685.1_436005_436542_-	NA	NA|235aa|down_8|NZ_CP011685.1_436933_437638_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NZ_CP011685.1_438036_438309_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	3	817635-817713	3	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,RT,WYL	Unclear	TGTAGAATTTCTTTTCGAAATTCT	24	1	3	817659-817689|817659-817689|817659-817689	NZ_CP011685.1_311401-311371|NZ_CP011685.1_311346-311316|NZ_CP011685.1_1706259-1706289	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,RT,WYL	NA|35aa|up_7|NZ_CP011685.1_808511_808616_+,NA|36aa|up_5|NZ_CP011685.1_810048_810156_+,NA	NA|191aa|up_9|NZ_CP011685.1_804952_805525_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_8|NZ_CP011685.1_805938_808470_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_7|NZ_CP011685.1_808511_808616_+	NA	NA|370aa|up_6|NZ_CP011685.1_808784_809895_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|36aa|up_5|NZ_CP011685.1_810048_810156_+	NA	NA|280aa|up_4|NZ_CP011685.1_810303_811143_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NZ_CP011685.1_811316_811967_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NZ_CP011685.1_811963_812200_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NZ_CP011685.1_812468_814454_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NZ_CP011685.1_814461_817308_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NZ_CP011685.1_817971_818904_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NZ_CP011685.1_818909_819749_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NZ_CP011685.1_819756_820242_+	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_CP011685.1_820249_821689_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|NZ_CP011685.1_821755_822691_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|NZ_CP011685.1_823518_824430_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|NZ_CP011685.1_824426_825422_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|NZ_CP011685.1_825532_826477_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|NZ_CP011685.1_827040_827628_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_9|NZ_CP011685.1_827870_828773_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	4	823036-823251	1	CRT	no	cas3	cas3,DEDDh,DinG,csa3,RT,WYL	Unclear	TGTGTTGGGGCCCACACCCCAACTTGCATTGTCTGTAGAA	40	3	46	823076-823094|823076-823094|823076-823094|823076-823094|823076-823094|823076-823094|823076-823094|823076-823094|823076-823094|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823135-823153|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211|823194-823211	NZ_CP011685.1_387718-387700|NZ_CP011685.1_651483-651465|NZ_CP011685.1_1047143-1047161|NZ_CP011685.1_1151181-1151163|NZ_CP011685.1_1357279-1357261|NZ_CP011685.1_1445711-1445729|NZ_CP011685.1_2004313-2004331|NZ_CP011685.1_2004372-2004390|NZ_CP011685.1_2359227-2359245|NZ_CP011685.1_823252-823270|NZ_CP011685.1_830504-830522|NZ_CP011685.1_776970-776952|NZ_CP011685.1_1357337-1357319|NZ_CP011685.1_2005773-2005791|NZ_CP011685.1_2106523-2106541|NZ_CP011685.1_2106640-2106658|NZ_CP011685.1_2359169-2359187|NZ_CP011685.1_790586-790568|NZ_CP011685.1_1145703-1145685|NZ_CP011685.1_1407291-1407309|NZ_CP011685.1_1445653-1445671|NZ_CP011685.1_2004257-2004275|NZ_CP011685.1_188334-188317|NZ_CP011685.1_311418-311401|NZ_CP011685.1_651424-651407|NZ_CP011685.1_775794-775811|NZ_CP011685.1_881098-881115|NZ_CP011685.1_1047086-1047103|NZ_CP011685.1_1145589-1145572|NZ_CP011685.1_1357220-1357203|NZ_CP011685.1_1671862-1671879|NZ_CP011685.1_1686399-1686382|NZ_CP011685.1_1857325-1857308|NZ_CP011685.1_2005715-2005732|NZ_CP011685.1_311363-311346|NZ_CP011685.1_951140-951157|NZ_CP011685.1_1151238-1151221|NZ_CP011685.1_1361686-1361703|NZ_CP011685.1_1407177-1407194|NZ_CP011685.1_1706123-1706140|NZ_CP011685.1_1706356-1706373|NZ_CP011685.1_2015065-2015082|NZ_CP011685.1_2369973-2369990|NZ_CP011685.1_790641-790624|NZ_CP011685.1_1151293-1151276|NZ_CP011685.1_1950021-1950038	NA	3	3	Unclear	cas3,DEDDh,DinG,csa3,RT,WYL	NA,NA	NA|280aa|up_9|NZ_CP011685.1_810303_811143_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_CP011685.1_811316_811967_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_CP011685.1_811963_812200_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_CP011685.1_812468_814454_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_CP011685.1_814461_817308_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP011685.1_817971_818904_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP011685.1_818909_819749_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP011685.1_819756_820242_+	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_CP011685.1_820249_821689_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NZ_CP011685.1_821755_822691_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP011685.1_823518_824430_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP011685.1_824426_825422_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP011685.1_825532_826477_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP011685.1_827040_827628_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NZ_CP011685.1_827870_828773_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NZ_CP011685.1_829475_830105_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NZ_CP011685.1_830917_831931_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NZ_CP011685.1_831983_832994_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NZ_CP011685.1_833132_834323_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NZ_CP011685.1_834444_835206_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	5	881016-881097	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	1	881040-881073	NZ_CP011685.1_1357337-1357304	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA,NA	NA|194aa|up_9|NZ_CP011685.1_874118_874700_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NZ_CP011685.1_874772_875390_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NZ_CP011685.1_875544_876039_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NZ_CP011685.1_876437_876860_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NZ_CP011685.1_877007_877724_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NZ_CP011685.1_877806_878346_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NZ_CP011685.1_878496_878817_-	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_2|NZ_CP011685.1_878960_879317_+	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_1|NZ_CP011685.1_879474_879855_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NZ_CP011685.1_880033_880912_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_CP011685.1_881708_882095_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_CP011685.1_882087_882384_+	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_CP011685.1_882633_883659_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NZ_CP011685.1_883651_884347_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NZ_CP011685.1_884364_885186_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|NZ_CP011685.1_885539_885734_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|NZ_CP011685.1_885967_886819_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|NZ_CP011685.1_887146_887908_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|NZ_CP011685.1_888005_889313_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_9|NZ_CP011685.1_889418_890669_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	6	1671777-1671861	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	CACCCCAACTTGCATTGTCTGTAGAA	26	1	1	1671803-1671835	NZ_CP011685.1_1357337-1357305	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA,NA	NA|228aa|up_9|NZ_CP011685.1_1660987_1661671_-	COG1030, NfeD, Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]	NA|59aa|up_8|NZ_CP011685.1_1661914_1662091_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|449aa|up_7|NZ_CP011685.1_1662383_1663730_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|251aa|up_6|NZ_CP011685.1_1663736_1664489_-	COG1385, COG1385, Uncharacterized protein conserved in bacteria [Function unknown]	NA|313aa|up_5|NZ_CP011685.1_1664490_1665429_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	NA|380aa|up_4|NZ_CP011685.1_1665432_1666572_-	PRK14280, PRK14280, molecular chaperone DnaJ	NA|611aa|up_3|NZ_CP011685.1_1666707_1668540_-	PRK00290, dnaK, molecular chaperone DnaK; Provisional	NA|209aa|up_2|NZ_CP011685.1_1668608_1669235_-	PRK14140, PRK14140, heat shock protein GrpE; Provisional	NA|326aa|up_1|NZ_CP011685.1_1669266_1670244_-	TIGR00331, Heat-inducible_transcription_repressor_HrcA, heat shock gene repressor HrcA	NA|375aa|up_0|NZ_CP011685.1_1670343_1671468_-	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|608aa|down_0|NZ_CP011685.1_1672033_1673857_-	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|84aa|down_1|NZ_CP011685.1_1674202_1674454_+	PRK00239, rpsT, 30S ribosomal protein S20; Reviewed	NA|325aa|down_2|NZ_CP011685.1_1674498_1675473_-	PRK05574, holA, DNA polymerase III subunit delta; Reviewed	NA|734aa|down_3|NZ_CP011685.1_1675529_1677731_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|154aa|down_4|NZ_CP011685.1_1677735_1678197_-	TIGR02571, putative_dCMP_deaminase, ComE operon protein 2	NA|229aa|down_5|NZ_CP011685.1_1678288_1678975_-	COG1555, ComEA, DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]	NA|239aa|down_6|NZ_CP011685.1_1679014_1679731_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|118aa|down_7|NZ_CP011685.1_1679733_1680087_-	COG0799, COG0799, Uncharacterized homolog of plant Iojap protein [Function unknown]	NA|195aa|down_8|NZ_CP011685.1_1680087_1680672_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|190aa|down_9|NZ_CP011685.1_1680661_1681231_-	TIGR00482, Probable_nicotinate-nucleotide_adenylyltransferase, nicotinate (nicotinamide) nucleotide adenylyltransferase
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	7	2106550-2106631	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	GGCCCCCACCCCAACTTACATTGT	24	1	5	2106574-2106607|2106574-2106607|2106574-2106607|2106574-2106607|2106574-2106607	NZ_CP011685.1_817634-817667|NZ_CP011685.1_1145597-1145564|NZ_CP011685.1_1798570-1798537|NZ_CP011685.1_1361678-1361711|NZ_CP011685.1_2807385-2807418	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|49aa|up_7|NZ_CP011685.1_2098817_2098964_+,NA|56aa|up_5|NZ_CP011685.1_2099215_2099383_+,NA|114aa|down_6|NZ_CP011685.1_2114438_2114780_-,NA|193aa|down_9|NZ_CP011685.1_2115596_2116175_-	NA|239aa|up_9|NZ_CP011685.1_2097161_2097878_+	COG2932, COG2932, Predicted transcriptional regulator [Transcription]	NA|285aa|up_8|NZ_CP011685.1_2097889_2098744_+	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|49aa|up_7|NZ_CP011685.1_2098817_2098964_+	NA	NA|62aa|up_6|NZ_CP011685.1_2098960_2099146_+	pfam00815, Histidinol_dh, Histidinol dehydrogenase	NA|56aa|up_5|NZ_CP011685.1_2099215_2099383_+	NA	NA|235aa|up_4|NZ_CP011685.1_2099522_2100227_+	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|346aa|up_3|NZ_CP011685.1_2100420_2101458_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|339aa|up_2|NZ_CP011685.1_2102576_2103593_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|352aa|up_1|NZ_CP011685.1_2103614_2104670_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|408aa|up_0|NZ_CP011685.1_2105105_2106329_+	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|436aa|down_0|NZ_CP011685.1_2106772_2108080_+	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|241aa|down_1|NZ_CP011685.1_2109096_2109819_+	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|267aa|down_2|NZ_CP011685.1_2109987_2110788_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|187aa|down_3|NZ_CP011685.1_2111575_2112136_+	cd15783, SA1633_like, Uncharacterized protein family conserved in Staphylococci	NA|235aa|down_4|NZ_CP011685.1_2113013_2113718_+	PRK13038, PRK13038, superantigen-like protein; Reviewed	NA|190aa|down_5|NZ_CP011685.1_2113872_2114442_-	COG3728, XtmA, Phage terminase, small subunit [DNA replication, recombination, and repair]	NA|114aa|down_6|NZ_CP011685.1_2114438_2114780_-	NA	NA|176aa|down_7|NZ_CP011685.1_2114782_2115310_-	COG5577, COG5577, Spore coat protein [Cell envelope biogenesis, outer membrane]	NA|73aa|down_8|NZ_CP011685.1_2115360_2115579_-	pfam16722, SAPIS-gp6, Pathogenicity island protein gp6 in Staphylococcus	NA|193aa|down_9|NZ_CP011685.1_2115596_2116175_-	NA
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	8	2122195-2122283	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	GTTTTTGACTGACTTCTCAATCA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|114aa|up_9|NZ_CP011685.1_2116186_2116528_-,NA|127aa|up_7|NZ_CP011685.1_2117615_2117996_-,NA|50aa|up_3|NZ_CP011685.1_2121291_2121441_-,NA|49aa|up_2|NZ_CP011685.1_2121493_2121640_-,NA	NA|114aa|up_9|NZ_CP011685.1_2116186_2116528_-	NA	NA|214aa|up_8|NZ_CP011685.1_2116977_2117619_-	pfam16560, SAPI, Putative mobile pathogenicity island	NA|127aa|up_7|NZ_CP011685.1_2117615_2117996_-	NA	NA|570aa|up_6|NZ_CP011685.1_2118305_2120015_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|290aa|up_5|NZ_CP011685.1_2120028_2120898_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|109aa|up_4|NZ_CP011685.1_2120962_2121289_-	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|50aa|up_3|NZ_CP011685.1_2121291_2121441_-	NA	NA|49aa|up_2|NZ_CP011685.1_2121493_2121640_-	NA	NA|106aa|up_1|NZ_CP011685.1_2121636_2121954_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|73aa|up_0|NZ_CP011685.1_2121958_2122177_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|225aa|down_0|NZ_CP011685.1_2122349_2123024_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|391aa|down_1|NZ_CP011685.1_2123037_2124210_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|539aa|down_2|NZ_CP011685.1_2124278_2125895_-	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|95aa|down_3|NZ_CP011685.1_2125970_2126255_-	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|248aa|down_4|NZ_CP011685.1_2126429_2127173_+	pfam02517, Abi, CAAX protease self-immunity	NA|390aa|down_5|NZ_CP011685.1_2127197_2128367_-	PHA03247, PHA03247, large tegument protein UL36; Provisional	NA|209aa|down_6|NZ_CP011685.1_2128563_2129190_+	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|262aa|down_7|NZ_CP011685.1_2129550_2130336_+	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|45aa|down_8|NZ_CP011685.1_2130935_2131070_-	PRK14752, PRK14752, delta-lysin family phenol-soluble modulin	NA|188aa|down_9|NZ_CP011685.1_2131305_2131869_+	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]
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	9	2251531-2251611	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,RT,WYL	Type I-A	CAACTTTAGTTGTTAGGGGCTCTT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|77aa|up_5|NZ_CP011685.1_2246405_2246636_-,NA|364aa|up_0|NZ_CP011685.1_2250422_2251514_+,NA|35aa|down_0|NZ_CP011685.1_2251946_2252051_-,NA|53aa|down_2|NZ_CP011685.1_2252730_2252889_+	NA|237aa|up_9|NZ_CP011685.1_2242016_2242727_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP011685.1_2242847_2243291_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP011685.1_2243490_2243904_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP011685.1_2244360_2245734_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP011685.1_2246405_2246636_-	NA	NA|313aa|up_4|NZ_CP011685.1_2246666_2247605_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP011685.1_2248040_2248706_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP011685.1_2248857_2249178_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|326aa|up_1|NZ_CP011685.1_2249179_2250157_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP011685.1_2250422_2251514_+	NA	NA|35aa|down_0|NZ_CP011685.1_2251946_2252051_-	NA	NA|57aa|down_1|NZ_CP011685.1_2252567_2252738_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|down_2|NZ_CP011685.1_2252730_2252889_+	NA	NA|286aa|down_3|NZ_CP011685.1_2253546_2254404_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NZ_CP011685.1_2254471_2255254_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NZ_CP011685.1_2255485_2257291_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NZ_CP011685.1_2257971_2259510_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NZ_CP011685.1_2259544_2261677_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NZ_CP011685.1_2261688_2262123_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NZ_CP011685.1_2262122_2263229_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	10	2263852-2263937	9	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,RT,WYL	Type I-A	CCAACTGATTTTTGCGTATCATTAGT	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|35aa|up_9|NZ_CP011685.1_2251946_2252051_-,NA|53aa|up_7|NZ_CP011685.1_2252730_2252889_+,NA	NA|35aa|up_9|NZ_CP011685.1_2251946_2252051_-	NA	NA|57aa|up_8|NZ_CP011685.1_2252567_2252738_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|53aa|up_7|NZ_CP011685.1_2252730_2252889_+	NA	NA|286aa|up_6|NZ_CP011685.1_2253546_2254404_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|up_5|NZ_CP011685.1_2254471_2255254_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|up_4|NZ_CP011685.1_2255485_2257291_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|up_3|NZ_CP011685.1_2257971_2259510_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_2|NZ_CP011685.1_2259544_2261677_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_1|NZ_CP011685.1_2261688_2262123_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_0|NZ_CP011685.1_2262122_2263229_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|down_0|NZ_CP011685.1_2271270_2272626_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|down_1|NZ_CP011685.1_2272652_2273585_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|down_2|NZ_CP011685.1_2273586_2274396_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|down_3|NZ_CP011685.1_2274584_2275493_-	cd09989, Arginase, Arginase family	NA|355aa|down_4|NZ_CP011685.1_2281733_2282798_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|481aa|down_5|NZ_CP011685.1_2282945_2284388_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|158aa|down_6|NZ_CP011685.1_2284710_2285184_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|448aa|down_7|NZ_CP011685.1_2285282_2286626_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|228aa|down_8|NZ_CP011685.1_2286802_2287486_-	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|396aa|down_9|NZ_CP011685.1_2287504_2288692_-	cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc
GCF_001640885.1_ASM164088v1	NZ_CP011685	Staphylococcus aureus strain ZJ5499 chromosome, complete genome	11	2369989-2370069	10	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,RT,WYL	Orphan	TCTATGTTGGGGCCCCGCCAACTTG	25	1	15	2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044|2370014-2370044	NZ_CP011685.1_830320-830350|NZ_CP011685.1_830376-830406|NZ_CP011685.1_89846-89876|NZ_CP011685.1_387732-387702|NZ_CP011685.1_651497-651467|NZ_CP011685.1_830432-830462|NZ_CP011685.1_881352-881382|NZ_CP011685.1_1047129-1047159|NZ_CP011685.1_1151195-1151165|NZ_CP011685.1_1357293-1357263|NZ_CP011685.1_1445697-1445727|NZ_CP011685.1_1686471-1686441|NZ_CP011685.1_2004358-2004388|NZ_CP011685.1_2359213-2359243|NZ_CP011685.1_2534695-2534725	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,RT,WYL	NA|55aa|up_9|NZ_CP011685.1_2360522_2360687_+,NA|106aa|up_8|NZ_CP011685.1_2360931_2361249_+,NA|84aa|up_5|NZ_CP011685.1_2366370_2366622_+,NA|62aa|up_0|NZ_CP011685.1_2369761_2369947_+,NA	NA|55aa|up_9|NZ_CP011685.1_2360522_2360687_+	NA	NA|106aa|up_8|NZ_CP011685.1_2360931_2361249_+	NA	NA|1056aa|up_7|NZ_CP011685.1_2361432_2364600_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP011685.1_2364716_2365982_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP011685.1_2366370_2366622_+	NA	NA|255aa|up_4|NZ_CP011685.1_2366613_2367378_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP011685.1_2367539_2367980_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_CP011685.1_2367972_2369184_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP011685.1_2369285_2369636_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|62aa|up_0|NZ_CP011685.1_2369761_2369947_+	NA	NA|341aa|down_0|NZ_CP011685.1_2370212_2371235_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_CP011685.1_2371254_2371854_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_CP011685.1_2371860_2372094_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_CP011685.1_2372099_2372546_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_CP011685.1_2372559_2373045_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_CP011685.1_2373041_2374301_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_CP011685.1_2374363_2374858_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_CP011685.1_2374859_2375366_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_CP011685.1_2375396_2376401_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_CP011685.1_2376570_2377176_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
