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_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	1	497709-497908	1	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TGCAAGTTGGCGGGGCCCCAACACAGAAGCT	31	2	2	497740-497764|497796-497820	NZ_LT992463.1_497909-497933|NZ_LT992463.1_2333400-2333424	NA	3	3	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA|131aa|down_5|NZ_LT992463.1_503084_503477_+	NA|574aa|up_9|NZ_LT992463.1_485155_486877_+	pfam18674, TarS_C1, TarS beta-glycosyltransferase C-terminal domain 1	NA|225aa|up_8|NZ_LT992463.1_487020_487695_+	PRK13276, PRK13276, iron-sulfur cluster repair di-iron protein ScdA	NA|585aa|up_7|NZ_LT992463.1_487941_489696_+	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms]	NA|247aa|up_6|NZ_LT992463.1_489698_490439_+	PRK14084, PRK14084, DNA-binding response regulator	NA|148aa|up_5|NZ_LT992463.1_490551_490995_+	PRK04125, PRK04125, antiholin-like protein LrgA	NA|234aa|up_4|NZ_LT992463.1_490987_491689_+	PRK04288, PRK04288, antiholin-like protein LrgB; Provisional	NA|764aa|up_3|NZ_LT992463.1_492029_494321_+	COG3256, NorB, Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]	NA|235aa|up_2|NZ_LT992463.1_494546_495251_-	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|264aa|up_1|NZ_LT992463.1_495399_496191_+	COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate transport and metabolism]	NA|479aa|up_0|NZ_LT992463.1_496206_497643_+	PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed	NA|254aa|down_0|NZ_LT992463.1_498218_498980_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|305aa|down_1|NZ_LT992463.1_499231_500146_-	TIGR02152, Putative_ribokinase, ribokinase	NA|135aa|down_2|NZ_LT992463.1_500173_500578_-	PRK11797, PRK11797, D-ribose pyranase; Provisional	NA|294aa|down_3|NZ_LT992463.1_500592_501474_-	pfam06800, Sugar_transport, Sugar transport protein	NA|333aa|down_4|NZ_LT992463.1_501705_502704_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|131aa|down_5|NZ_LT992463.1_503084_503477_+	NA	NA|459aa|down_6|NZ_LT992463.1_503605_504982_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|331aa|down_7|NZ_LT992463.1_505215_506208_+	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane]	NA|317aa|down_8|NZ_LT992463.1_506533_507484_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|220aa|down_9|NZ_LT992463.1_507535_508195_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	2	897486-897594	2	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	AAAGGAACGCAGTTGGATGCTACCGCACAACTGCATAAA	39	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA|169aa|down_4|NZ_LT992463.1_901327_901834_+,NA|239aa|down_5|NZ_LT992463.1_901995_902712_+	NA|209aa|up_9|NZ_LT992463.1_886990_887617_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|313aa|up_8|NZ_LT992463.1_887886_888825_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_7|NZ_LT992463.1_889270_889807_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_6|NZ_LT992463.1_889976_890453_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_5|NZ_LT992463.1_890492_891788_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_4|NZ_LT992463.1_891815_892337_+	pfam08741, YwhD, YwhD family	NA|337aa|up_3|NZ_LT992463.1_892835_893846_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|139aa|up_2|NZ_LT992463.1_894121_894538_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NZ_LT992463.1_894534_896196_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NZ_LT992463.1_896680_897316_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NZ_LT992463.1_897645_898533_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NZ_LT992463.1_898683_899634_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NZ_LT992463.1_899688_900408_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NZ_LT992463.1_900391_901192_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NZ_LT992463.1_901327_901834_+	NA	NA|239aa|down_5|NZ_LT992463.1_901995_902712_+	NA	NA|263aa|down_6|NZ_LT992463.1_902880_903669_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NZ_LT992463.1_903920_904295_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NZ_LT992463.1_905242_906172_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NZ_LT992463.1_906364_906589_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	3	1059773-1059855	3	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	CACCCCAACTCGCATTGCTTGTAGAA	26	1	26	1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829|1059799-1059829	NZ_LT992463.1_1154087-1154057|NZ_LT992463.1_1192888-1192918|NZ_LT992463.1_2179258-2179288|NZ_LT992463.1_2179368-2179398|NZ_LT992463.1_2179478-2179508|NZ_LT992463.1_2247578-2247608|NZ_LT992463.1_479721-479751|NZ_LT992463.1_479779-479809|NZ_LT992463.1_479837-479867|NZ_LT992463.1_619458-619428|NZ_LT992463.1_888983-888953|NZ_LT992463.1_1013485-1013455|NZ_LT992463.1_1104718-1104748|NZ_LT992463.1_1285854-1285884|NZ_LT992463.1_1386182-1386152|NZ_LT992463.1_1386236-1386206|NZ_LT992463.1_1990721-1990691|NZ_LT992463.1_2081499-2081469|NZ_LT992463.1_2496824-2496854|NZ_LT992463.1_2541889-2541859|NZ_LT992463.1_143275-143305|NZ_LT992463.1_1068780-1068810|NZ_LT992463.1_1108856-1108826|NZ_LT992463.1_1595127-1595157|NZ_LT992463.1_1641217-1641247|NZ_LT992463.1_2507572-2507602	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA	NA|280aa|up_9|NZ_LT992463.1_1047022_1047862_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_LT992463.1_1048035_1048686_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_LT992463.1_1048682_1048919_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_LT992463.1_1049187_1051173_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_LT992463.1_1051180_1054027_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_LT992463.1_1054636_1055569_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_LT992463.1_1055574_1056414_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_LT992463.1_1056421_1056907_+	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_LT992463.1_1056914_1058354_+	sd00006, TPR, Tetratricopeptide repeat	NA|312aa|up_0|NZ_LT992463.1_1058420_1059356_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_LT992463.1_1060123_1061035_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_LT992463.1_1061031_1062027_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_LT992463.1_1062135_1063080_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_LT992463.1_1063649_1064237_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|545aa|down_4|NZ_LT992463.1_1064419_1066054_+	PRK13529, PRK13529, oxaloacetate-decarboxylating malate dehydrogenase	NA|301aa|down_5|NZ_LT992463.1_1066260_1067163_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_6|NZ_LT992463.1_1067865_1068495_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_7|NZ_LT992463.1_1069269_1070283_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_8|NZ_LT992463.1_1070335_1071346_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_9|NZ_LT992463.1_1071484_1072675_+	PRK00073, pgk, phosphoglycerate kinase; Provisional
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	4	1109125-1109205	4	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TCTTTATCATTTCTGTCCCACTCCC	25	1	1	1109150-1109180	NZ_LT992463.1_1054226-1054196	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA|105aa|down_7|NZ_LT992463.1_1116811_1117126_-	NA|180aa|up_9|NZ_LT992463.1_1101255_1101795_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_8|NZ_LT992463.1_1101944_1102265_-	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_7|NZ_LT992463.1_1102408_1102765_+	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_6|NZ_LT992463.1_1102922_1103303_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_5|NZ_LT992463.1_1103482_1104361_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|up_4|NZ_LT992463.1_1105062_1105449_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|up_3|NZ_LT992463.1_1105441_1105738_+	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|up_2|NZ_LT992463.1_1105987_1107013_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|up_1|NZ_LT992463.1_1107005_1107701_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|up_0|NZ_LT992463.1_1107718_1108540_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_0|NZ_LT992463.1_1109347_1109542_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_1|NZ_LT992463.1_1109775_1110627_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_2|NZ_LT992463.1_1110954_1111716_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_3|NZ_LT992463.1_1111814_1113122_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_4|NZ_LT992463.1_1113227_1114478_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|155aa|down_5|NZ_LT992463.1_1114467_1114932_+	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family	NA|466aa|down_6|NZ_LT992463.1_1115082_1116480_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|105aa|down_7|NZ_LT992463.1_1116811_1117126_-	NA	NA|347aa|down_8|NZ_LT992463.1_1117494_1118535_+	COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]	NA|356aa|down_9|NZ_LT992463.1_1118548_1119616_+	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	5	1993154-1993236	5	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	GAAGCTGACGAAAAAGTCAGCTTAC	25	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA	NA|454aa|up_9|NZ_LT992463.1_1977987_1979349_+	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|586aa|up_8|NZ_LT992463.1_1979692_1981450_-	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|323aa|up_7|NZ_LT992463.1_1981471_1982440_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|315aa|up_6|NZ_LT992463.1_1982708_1983653_-	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|286aa|up_5|NZ_LT992463.1_1983652_1984510_-	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|410aa|up_4|NZ_LT992463.1_1984704_1985934_-	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|1066aa|up_3|NZ_LT992463.1_1986382_1989580_-	COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]	NA|314aa|up_2|NZ_LT992463.1_1989600_1990542_-	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|433aa|up_1|NZ_LT992463.1_1990911_1992210_-	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|138aa|up_0|NZ_LT992463.1_1992414_1992828_+	pfam00582, Usp, Universal stress protein family	NA|230aa|down_0|NZ_LT992463.1_1993333_1994023_-	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|352aa|down_1|NZ_LT992463.1_1994197_1995253_+	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|373aa|down_2|NZ_LT992463.1_1995568_1996687_-	cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic domains	NA|167aa|down_3|NZ_LT992463.1_1996827_1997328_+	pfam00582, Usp, Universal stress protein family	NA|401aa|down_4|NZ_LT992463.1_1997574_1998777_-	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed	NA|316aa|down_5|NZ_LT992463.1_1998864_1999812_-	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|165aa|down_6|NZ_LT992463.1_1999934_2000429_-	PRK00522, tpx, thiol peroxidase	NA|257aa|down_7|NZ_LT992463.1_2000526_2001297_-	PRK10621, PRK10621, hypothetical protein; Provisional	NA|408aa|down_8|NZ_LT992463.1_2001340_2002564_-	PRK01565, PRK01565, thiamine biosynthesis protein ThiI; Provisional	NA|383aa|down_9|NZ_LT992463.1_2002563_2003712_-	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	6	2081508-2081601	6	CRISPRCasFinder	no	csa3	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Type I-A	GCAATGCGCGTTGGGGTGTGGGGCCCCAACATAG	34	1	2	2081542-2081567|2081542-2081567	NZ_LT992463.1_2179330-2179305|NZ_LT992463.1_2179440-2179415	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|75aa|up_5|NZ_LT992463.1_2077601_2077826_-,NA|148aa|up_2|NZ_LT992463.1_2079037_2079481_-,NA|101aa|down_1|NZ_LT992463.1_2082735_2083038_+	NA|501aa|up_9|NZ_LT992463.1_2072633_2074136_-	COG4529, COG4529, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|105aa|up_8|NZ_LT992463.1_2074778_2075093_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|431aa|up_7|NZ_LT992463.1_2075092_2076385_+	PRK15445, PRK15445, arsenical efflux pump membrane protein ArsB	NA|285aa|up_6|NZ_LT992463.1_2076471_2077326_-	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|75aa|up_5|NZ_LT992463.1_2077601_2077826_-	NA	NA|157aa|up_4|NZ_LT992463.1_2078024_2078495_+	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]	NA|148aa|up_3|NZ_LT992463.1_2078607_2079051_+	pfam06338, ComK, ComK protein	NA|148aa|up_2|NZ_LT992463.1_2079037_2079481_-	NA	NA|212aa|up_1|NZ_LT992463.1_2079778_2080414_+	pfam02517, Abi, CAAX protease self-immunity	NA|207aa|up_0|NZ_LT992463.1_2080580_2081201_+	pfam02517, Abi, CAAX protease self-immunity	NA|238aa|down_0|NZ_LT992463.1_2081763_2082477_-	PRK12376, PRK12376, putative translaldolase; Provisional	NA|101aa|down_1|NZ_LT992463.1_2082735_2083038_+	NA	NA|122aa|down_2|NZ_LT992463.1_2083292_2083658_+	PRK14201, PRK14201, fluoride efflux transporter CrcB	NA|118aa|down_3|NZ_LT992463.1_2083654_2084008_+	COG0239, CrcB, Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]	NA|278aa|down_4|NZ_LT992463.1_2084257_2085091_-	COG0656, ARA1, Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]	NA|303aa|down_5|NZ_LT992463.1_2085302_2086211_-	pfam08378, NERD, Nuclease-related domain	NA|398aa|down_6|NZ_LT992463.1_2086335_2087529_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|531aa|down_7|NZ_LT992463.1_2087900_2089493_+	cd00484, PEPCK_ATP, Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis	NA|249aa|down_8|NZ_LT992463.1_2089789_2090536_-	COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]	NA|158aa|down_9|NZ_LT992463.1_2090540_2091014_-	TIGR02705, conserved_hypothetical_protein, nucleoside triphosphatase YtkD
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	7	2322326-2322538	7	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TGATGTGCTGTTGTGGAAGCTTGGTGTCGTGCCATGCTACTTTGATG	47	0	0	NA	NA	NA	2	2	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|46aa|up_4|NZ_LT992463.1_2319187_2319325_-,NA|107aa|down_0|NZ_LT992463.1_2322571_2322892_+	NA|232aa|up_9|NZ_LT992463.1_2311879_2312575_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|507aa|up_8|NZ_LT992463.1_2312927_2314448_-	COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	NA|452aa|up_7|NZ_LT992463.1_2314963_2316319_-	COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]	NA|357aa|up_6|NZ_LT992463.1_2316333_2317404_-	PRK01966, ddl, D-alanine--D-alanine ligase	NA|401aa|up_5|NZ_LT992463.1_2317721_2318924_+	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|46aa|up_4|NZ_LT992463.1_2319187_2319325_-	NA	NA|70aa|up_3|NZ_LT992463.1_2319452_2319662_-	cd00371, HMA, Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones	NA|98aa|up_2|NZ_LT992463.1_2319673_2319967_-	cd10152, SaCsoR-like_DUF156, Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156	NA|495aa|up_1|NZ_LT992463.1_2320132_2321617_+	TIGR04265, bac_cardiolipin, cardiolipin synthase	NA|216aa|up_0|NZ_LT992463.1_2321644_2322292_+	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only]	NA|107aa|down_0|NZ_LT992463.1_2322571_2322892_+	NA	NA|291aa|down_1|NZ_LT992463.1_2324533_2325406_-	PRK02463, PRK02463, OxaA-like protein precursor; Provisional	NA|214aa|down_2|NZ_LT992463.1_2325491_2326133_-	PRK00043, thiE, thiamine phosphate synthase	NA|264aa|down_3|NZ_LT992463.1_2326134_2326926_-	PRK09355, PRK09355, hydroxyethylthiazole kinase; Validated	NA|277aa|down_4|NZ_LT992463.1_2326909_2327740_-	PRK06427, PRK06427, bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed	NA|230aa|down_5|NZ_LT992463.1_2327732_2328422_-	TIGR04306, salvage_TenA, thiaminase II	NA|232aa|down_6|NZ_LT992463.1_2328808_2329504_-	pfam06737, Transglycosylas, Transglycosylase-like domain	NA|132aa|down_7|NZ_LT992463.1_2329892_2330288_-	pfam00436, SSB, Single-strand binding protein family	NA|147aa|down_8|NZ_LT992463.1_2330481_2330922_+	pfam14183, YwpF, YwpF-like protein	NA|147aa|down_9|NZ_LT992463.1_2330978_2331419_-	PRK00006, fabZ, 3-hydroxyacyl-ACP dehydratase FabZ
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	8	2377957-2378107	8	CRISPRCasFinder	no	csa3,TnsE_C	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Type I-A	AACTTTAGTTGTTAGGGGCTCTTATGCA	28	0	0	NA	NA	NA	2	2	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|77aa|up_5|NZ_LT992463.1_2372829_2373060_-,NA|364aa|up_0|NZ_LT992463.1_2376847_2377939_+,NA|35aa|down_0|NZ_LT992463.1_2378436_2378541_-,NA|53aa|down_1|NZ_LT992463.1_2379220_2379379_+,NA|107aa|down_9|NZ_LT992463.1_2386323_2386644_-	NA|237aa|up_9|NZ_LT992463.1_2368439_2369150_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_LT992463.1_2369270_2369714_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_LT992463.1_2369913_2370327_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_LT992463.1_2370784_2372158_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_LT992463.1_2372829_2373060_-	NA	NA|313aa|up_4|NZ_LT992463.1_2373090_2374029_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_LT992463.1_2374462_2375128_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_LT992463.1_2375279_2375600_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_LT992463.1_2375601_2376582_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_LT992463.1_2376847_2377939_+	NA	NA|35aa|down_0|NZ_LT992463.1_2378436_2378541_-	NA	NA|53aa|down_1|NZ_LT992463.1_2379220_2379379_+	NA	NA|286aa|down_2|NZ_LT992463.1_2380036_2380894_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|NZ_LT992463.1_2380961_2381744_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|203aa|down_4|NZ_LT992463.1_2382033_2382642_-	pfam08937, DUF1863, MTH538 TIR-like domain (DUF1863)	NA|345aa|down_5|NZ_LT992463.1_2382669_2383704_-	pfam13676, TIR_2, TIR domain	NA|490aa|down_6|NZ_LT992463.1_2383797_2385267_-	pfam18185, STALD, Sir2- and TIR-associating SLOG family	NA|97aa|down_7|NZ_LT992463.1_2385326_2385617_-	pfam11867, DUF3387, Domain of unknown function (DUF3387)	TnsE_C|135aa|down_8|NZ_LT992463.1_2385741_2386146_-	pfam18623, TnsE_C, TnsE C-terminal domain	NA|107aa|down_9|NZ_LT992463.1_2386323_2386644_-	NA
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	9	2718094-2718188	9	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	AGGCTCTTATGCAGTTGGTGCGAAGCAA	28	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|249aa|up_9|NZ_LT992463.1_2707679_2708426_+,NA|121aa|down_0|NZ_LT992463.1_2718856_2719219_-,NA|105aa|down_8|NZ_LT992463.1_2726031_2726346_+	NA|249aa|up_9|NZ_LT992463.1_2707679_2708426_+	NA	NA|398aa|up_8|NZ_LT992463.1_2708649_2709843_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|250aa|up_7|NZ_LT992463.1_2709854_2710604_-	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|272aa|up_6|NZ_LT992463.1_2710596_2711412_-	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|290aa|up_5|NZ_LT992463.1_2711408_2712278_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|312aa|up_4|NZ_LT992463.1_2712274_2713210_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|533aa|up_3|NZ_LT992463.1_2713222_2714821_-	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|434aa|up_2|NZ_LT992463.1_2714963_2716265_-	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|273aa|up_1|NZ_LT992463.1_2716257_2717076_-	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|274aa|up_0|NZ_LT992463.1_2717086_2717908_-	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|121aa|down_0|NZ_LT992463.1_2718856_2719219_-	NA	NA|273aa|down_1|NZ_LT992463.1_2719481_2720300_-	PRK08589, PRK08589, SDR family oxidoreductase	NA|513aa|down_2|NZ_LT992463.1_2720533_2722072_+	pfam03806, ABG_transport, AbgT putative transporter family	NA|141aa|down_3|NZ_LT992463.1_2722183_2722606_-	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|133aa|down_4|NZ_LT992463.1_2723077_2723476_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|137aa|down_5|NZ_LT992463.1_2723502_2723913_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|128aa|down_6|NZ_LT992463.1_2724367_2724751_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|403aa|down_7|NZ_LT992463.1_2724817_2726026_+	cd07657, F-BAR_Fes_Fer, The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases	NA|105aa|down_8|NZ_LT992463.1_2726031_2726346_+	NA	NA|140aa|down_9|NZ_LT992463.1_2728222_2728642_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)
GCF_900324255.1_2_LA_86	NZ_LT992463	Staphylococcus aureus isolate 2_LA_86 chromosome I	10	2746039-2746149	10	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	GGTACTTCTGGTGTCGGTGGCGTTGGT	27	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|89aa|up_2|NZ_LT992463.1_2740342_2740609_+,NA|103aa|up_1|NZ_LT992463.1_2740752_2741061_+,NA	NA|452aa|up_9|NZ_LT992463.1_2731736_2733092_-	cd00519, Lipase_3, Lipase (class 3)	NA|262aa|up_8|NZ_LT992463.1_2733088_2733874_-	pfam04507, DUF576, Csa1 family	NA|255aa|up_7|NZ_LT992463.1_2734121_2734886_-	pfam04507, DUF576, Csa1 family	NA|258aa|up_6|NZ_LT992463.1_2734997_2735771_-	pfam04507, DUF576, Csa1 family	NA|310aa|up_5|NZ_LT992463.1_2736013_2736943_-	pfam09019, EcoRII-C, EcoRII C terminal	NA|398aa|up_4|NZ_LT992463.1_2737038_2738232_+	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|584aa|up_3|NZ_LT992463.1_2738307_2740059_+	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|89aa|up_2|NZ_LT992463.1_2740342_2740609_+	NA	NA|103aa|up_1|NZ_LT992463.1_2740752_2741061_+	NA	NA|289aa|up_0|NZ_LT992463.1_2741186_2742053_-	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|453aa|down_0|NZ_LT992463.1_2749289_2750648_-	TIGR00791, Gluconate_permease, gluconate transporter	NA|518aa|down_1|NZ_LT992463.1_2750764_2752318_-	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|226aa|down_2|NZ_LT992463.1_2752342_2753020_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|263aa|down_3|NZ_LT992463.1_2753176_2753965_-	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|231aa|down_4|NZ_LT992463.1_2754104_2754797_-	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|139aa|down_5|NZ_LT992463.1_2755027_2755444_-	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|608aa|down_6|NZ_LT992463.1_2755582_2757406_-	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|426aa|down_7|NZ_LT992463.1_2758317_2759595_-	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|204aa|down_8|NZ_LT992463.1_2760141_2760753_+	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|388aa|down_9|NZ_LT992463.1_2760850_2762014_-	cd17474, MFS_YfmO_like, Bacillus subtilis multidrug efflux protein YfmO and similar transporters of the Major Facilitator Superfamily
