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_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	1	357568-357767	1	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TGCAAGTTGGCGGGGCCCCAACACAGAAGCT	31	1	1	357599-357623	NZ_CP029172.1_357768-357792	NA	3	3	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA|131aa|down_5|NZ_CP029172.1_362943_363336_+	NA|574aa|up_9|NZ_CP029172.1_345014_346736_+	pfam18674, TarS_C1, TarS beta-glycosyltransferase C-terminal domain 1	NA|225aa|up_8|NZ_CP029172.1_346879_347554_+	PRK13276, PRK13276, iron-sulfur cluster repair di-iron protein ScdA	NA|580aa|up_7|NZ_CP029172.1_347815_349555_+	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms]	NA|247aa|up_6|NZ_CP029172.1_349557_350298_+	PRK14084, PRK14084, DNA-binding response regulator	NA|148aa|up_5|NZ_CP029172.1_350410_350854_+	PRK04125, PRK04125, antiholin-like protein LrgA	NA|234aa|up_4|NZ_CP029172.1_350846_351548_+	PRK04288, PRK04288, antiholin-like protein LrgB; Provisional	NA|764aa|up_3|NZ_CP029172.1_351888_354180_+	COG3256, NorB, Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]	NA|235aa|up_2|NZ_CP029172.1_354405_355110_-	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|264aa|up_1|NZ_CP029172.1_355258_356050_+	COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate transport and metabolism]	NA|479aa|up_0|NZ_CP029172.1_356065_357502_+	PRK09589, celA, 6-phospho-beta-glucosidase; Reviewed	NA|254aa|down_0|NZ_CP029172.1_358077_358839_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|305aa|down_1|NZ_CP029172.1_359090_360005_-	TIGR02152, Putative_ribokinase, ribokinase	NA|135aa|down_2|NZ_CP029172.1_360032_360437_-	PRK11797, PRK11797, D-ribose pyranase; Provisional	NA|294aa|down_3|NZ_CP029172.1_360451_361333_-	pfam06800, Sugar_transport, Sugar transport protein	NA|333aa|down_4|NZ_CP029172.1_361564_362563_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|131aa|down_5|NZ_CP029172.1_362943_363336_+	NA	NA|459aa|down_6|NZ_CP029172.1_363464_364841_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|331aa|down_7|NZ_CP029172.1_365074_366067_+	COG3049, COG3049, Penicillin V acylase and related amidases [Cell envelope biogenesis, outer membrane]	NA|317aa|down_8|NZ_CP029172.1_366392_367343_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|220aa|down_9|NZ_CP029172.1_367394_368054_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	2	928338-928420	2	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	CACCCCAACTCGCATTGCTTGTAGAA	26	1	25	928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394|928364-928394	NZ_CP029172.1_1047708-1047678|NZ_CP029172.1_1086509-1086539|NZ_CP029172.1_2085012-2085042|NZ_CP029172.1_2085122-2085152|NZ_CP029172.1_2160038-2160068|NZ_CP029172.1_339522-339552|NZ_CP029172.1_339580-339610|NZ_CP029172.1_339638-339668|NZ_CP029172.1_339696-339726|NZ_CP029172.1_481137-481107|NZ_CP029172.1_755095-755065|NZ_CP029172.1_882051-882021|NZ_CP029172.1_998339-998369|NZ_CP029172.1_1182088-1182118|NZ_CP029172.1_1283748-1283718|NZ_CP029172.1_1283802-1283772|NZ_CP029172.1_1895361-1895331|NZ_CP029172.1_1985921-1985891|NZ_CP029172.1_2409185-2409215|NZ_CP029172.1_937347-937377|NZ_CP029172.1_959476-959506|NZ_CP029172.1_1002477-1002447|NZ_CP029172.1_1498640-1498670|NZ_CP029172.1_1546061-1546091|NZ_CP029172.1_2860206-2860236	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA	NA|280aa|up_9|NZ_CP029172.1_915587_916427_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_CP029172.1_916600_917251_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_CP029172.1_917247_917484_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_CP029172.1_917752_919738_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_CP029172.1_919745_922592_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP029172.1_923201_924134_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP029172.1_924139_924979_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP029172.1_924986_925472_+	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_CP029172.1_925479_926919_+	sd00006, TPR, Tetratricopeptide repeat	NA|312aa|up_0|NZ_CP029172.1_926985_927921_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP029172.1_928688_929600_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP029172.1_929596_930592_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP029172.1_930700_931645_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP029172.1_932214_932802_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|545aa|down_4|NZ_CP029172.1_932984_934619_+	PRK13529, PRK13529, oxaloacetate-decarboxylating malate dehydrogenase	NA|301aa|down_5|NZ_CP029172.1_934825_935728_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_6|NZ_CP029172.1_936432_937062_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_7|NZ_CP029172.1_937836_938850_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|662aa|down_8|NZ_CP029172.1_939884_941870_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|down_9|NZ_CP029172.1_941877_944724_+	PRK00349, uvrA, excinuclease ABC subunit UvrA
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	3	950470-950552	3	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	CACCCCAACTCGCATTGCTTGTAGAA	26	1	25	950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526|950496-950526	NZ_CP029172.1_1047708-1047678|NZ_CP029172.1_1086509-1086539|NZ_CP029172.1_2085012-2085042|NZ_CP029172.1_2085122-2085152|NZ_CP029172.1_2160038-2160068|NZ_CP029172.1_339522-339552|NZ_CP029172.1_339580-339610|NZ_CP029172.1_339638-339668|NZ_CP029172.1_339696-339726|NZ_CP029172.1_481137-481107|NZ_CP029172.1_755095-755065|NZ_CP029172.1_882051-882021|NZ_CP029172.1_998339-998369|NZ_CP029172.1_1182088-1182118|NZ_CP029172.1_1283748-1283718|NZ_CP029172.1_1283802-1283772|NZ_CP029172.1_1895361-1895331|NZ_CP029172.1_1985921-1985891|NZ_CP029172.1_2409185-2409215|NZ_CP029172.1_937347-937377|NZ_CP029172.1_959476-959506|NZ_CP029172.1_1002477-1002447|NZ_CP029172.1_1498640-1498670|NZ_CP029172.1_1546061-1546091|NZ_CP029172.1_2860206-2860236	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA,NA	NA|301aa|up_9|NZ_CP029172.1_934825_935728_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|up_8|NZ_CP029172.1_936432_937062_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|up_7|NZ_CP029172.1_937836_938850_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|662aa|up_6|NZ_CP029172.1_939884_941870_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_CP029172.1_941877_944724_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP029172.1_945333_946266_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP029172.1_946271_947111_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP029172.1_947118_947604_+	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_CP029172.1_947611_949051_+	sd00006, TPR, Tetratricopeptide repeat	NA|312aa|up_0|NZ_CP029172.1_949117_950053_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP029172.1_950820_951732_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP029172.1_951728_952724_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP029172.1_952832_953777_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP029172.1_954346_954934_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|545aa|down_4|NZ_CP029172.1_955116_956751_+	PRK13529, PRK13529, oxaloacetate-decarboxylating malate dehydrogenase	NA|301aa|down_5|NZ_CP029172.1_956957_957860_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_6|NZ_CP029172.1_958561_959191_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_7|NZ_CP029172.1_959965_960979_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_8|NZ_CP029172.1_961031_962042_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_9|NZ_CP029172.1_962180_963371_+	PRK00073, pgk, phosphoglycerate kinase; Provisional
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	4	1002746-1002826	4	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TCTTTATCATTTCTGTCCCACTCCC	25	1	2	1002771-1002801|1002771-1002801	NZ_CP029172.1_922791-922761|NZ_CP029172.1_944923-944893	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|38aa|up_6|NZ_CP029172.1_996988_997102_+,NA|105aa|down_7|NZ_CP029172.1_1010432_1010747_-	NA|107aa|up_9|NZ_CP029172.1_995565_995886_-	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_8|NZ_CP029172.1_996029_996386_+	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_7|NZ_CP029172.1_996543_996924_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_6|NZ_CP029172.1_996988_997102_+	NA	NA|293aa|up_5|NZ_CP029172.1_997103_997982_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|up_4|NZ_CP029172.1_998683_999070_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|up_3|NZ_CP029172.1_999062_999359_+	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_CP029172.1_999608_1000634_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|up_1|NZ_CP029172.1_1000626_1001322_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|up_0|NZ_CP029172.1_1001339_1002161_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_0|NZ_CP029172.1_1002968_1003163_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_1|NZ_CP029172.1_1003396_1004248_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_2|NZ_CP029172.1_1004575_1005337_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_3|NZ_CP029172.1_1005435_1006743_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|414aa|down_4|NZ_CP029172.1_1006857_1008099_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|155aa|down_5|NZ_CP029172.1_1008088_1008553_+	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family	NA|466aa|down_6|NZ_CP029172.1_1008703_1010101_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|105aa|down_7|NZ_CP029172.1_1010432_1010747_-	NA	NA|347aa|down_8|NZ_CP029172.1_1011115_1012156_+	COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]	NA|356aa|down_9|NZ_CP029172.1_1012169_1013237_+	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	5	1985930-1986023	5	CRISPRCasFinder	no	csa3	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Type I-A	GCAATGCGCGTTGGGGTGTGGGGCCCCAACATAG	34	1	1	1985964-1985989	NZ_CP029172.1_2085084-2085059	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|75aa|up_5|NZ_CP029172.1_1982023_1982248_-,NA|148aa|up_2|NZ_CP029172.1_1983459_1983903_-,NA|101aa|down_1|NZ_CP029172.1_1987157_1987460_+	NA|501aa|up_9|NZ_CP029172.1_1977055_1978558_-	COG4529, COG4529, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|105aa|up_8|NZ_CP029172.1_1979200_1979515_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|431aa|up_7|NZ_CP029172.1_1979514_1980807_+	PRK15445, PRK15445, arsenical efflux pump membrane protein ArsB	NA|285aa|up_6|NZ_CP029172.1_1980893_1981748_-	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|75aa|up_5|NZ_CP029172.1_1982023_1982248_-	NA	NA|157aa|up_4|NZ_CP029172.1_1982446_1982917_+	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]	NA|148aa|up_3|NZ_CP029172.1_1983029_1983473_+	pfam06338, ComK, ComK protein	NA|148aa|up_2|NZ_CP029172.1_1983459_1983903_-	NA	NA|212aa|up_1|NZ_CP029172.1_1984200_1984836_+	pfam02517, Abi, CAAX protease self-immunity	NA|207aa|up_0|NZ_CP029172.1_1985002_1985623_+	pfam02517, Abi, CAAX protease self-immunity	NA|238aa|down_0|NZ_CP029172.1_1986185_1986899_-	PRK12376, PRK12376, putative translaldolase; Provisional	NA|101aa|down_1|NZ_CP029172.1_1987157_1987460_+	NA	NA|122aa|down_2|NZ_CP029172.1_1987714_1988080_+	PRK14201, PRK14201, fluoride efflux transporter CrcB	NA|118aa|down_3|NZ_CP029172.1_1988076_1988430_+	COG0239, CrcB, Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]	NA|278aa|down_4|NZ_CP029172.1_1988679_1989513_-	COG0656, ARA1, Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]	NA|303aa|down_5|NZ_CP029172.1_1989724_1990633_-	pfam08378, NERD, Nuclease-related domain	NA|398aa|down_6|NZ_CP029172.1_1990757_1991951_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|531aa|down_7|NZ_CP029172.1_1992322_1993915_+	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_CP029172.1_1994211_1994958_-	COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]	NA|158aa|down_9|NZ_CP029172.1_1994962_1995436_-	TIGR02705, conserved_hypothetical_protein, nucleoside triphosphatase YtkD
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	6	2234746-2234958	6	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_CP029172.1_2231607_2231745_-,NA|107aa|down_0|NZ_CP029172.1_2234991_2235312_+	NA|232aa|up_9|NZ_CP029172.1_2224299_2224995_+	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_CP029172.1_2225347_2226868_-	COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	NA|452aa|up_7|NZ_CP029172.1_2227383_2228739_-	COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]	NA|357aa|up_6|NZ_CP029172.1_2228753_2229824_-	PRK01966, ddl, D-alanine--D-alanine ligase	NA|401aa|up_5|NZ_CP029172.1_2230141_2231344_+	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|46aa|up_4|NZ_CP029172.1_2231607_2231745_-	NA	NA|70aa|up_3|NZ_CP029172.1_2231872_2232082_-	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_CP029172.1_2232093_2232387_-	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_CP029172.1_2232552_2234037_+	TIGR04265, bac_cardiolipin, cardiolipin synthase	NA|216aa|up_0|NZ_CP029172.1_2234064_2234712_+	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only]	NA|107aa|down_0|NZ_CP029172.1_2234991_2235312_+	NA	NA|291aa|down_1|NZ_CP029172.1_2236953_2237826_-	PRK02463, PRK02463, OxaA-like protein precursor; Provisional	NA|214aa|down_2|NZ_CP029172.1_2237911_2238553_-	PRK00043, thiE, thiamine phosphate synthase	NA|264aa|down_3|NZ_CP029172.1_2238554_2239346_-	PRK09355, PRK09355, hydroxyethylthiazole kinase; Validated	NA|277aa|down_4|NZ_CP029172.1_2239329_2240160_-	PRK06427, PRK06427, bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed	NA|230aa|down_5|NZ_CP029172.1_2240152_2240842_-	TIGR04306, salvage_TenA, thiaminase II	NA|232aa|down_6|NZ_CP029172.1_2241228_2241924_-	pfam06737, Transglycosylas, Transglycosylase-like domain	NA|132aa|down_7|NZ_CP029172.1_2242312_2242708_-	pfam00436, SSB, Single-strand binding protein family	NA|168aa|down_8|NZ_CP029172.1_2242838_2243342_+	pfam14183, YwpF, YwpF-like protein	NA|147aa|down_9|NZ_CP029172.1_2243398_2243839_-	PRK00006, fabZ, 3-hydroxyacyl-ACP dehydratase FabZ
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	7	2290318-2290468	7	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_CP029172.1_2285190_2285421_-,NA|364aa|up_0|NZ_CP029172.1_2289208_2290300_+,NA|35aa|down_0|NZ_CP029172.1_2290797_2290902_-,NA|53aa|down_1|NZ_CP029172.1_2291581_2291740_+,NA|107aa|down_9|NZ_CP029172.1_2298684_2299005_-	NA|237aa|up_9|NZ_CP029172.1_2280800_2281511_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP029172.1_2281631_2282075_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP029172.1_2282274_2282688_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP029172.1_2283145_2284519_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP029172.1_2285190_2285421_-	NA	NA|313aa|up_4|NZ_CP029172.1_2285451_2286390_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP029172.1_2286823_2287489_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP029172.1_2287640_2287961_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_CP029172.1_2287962_2288943_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP029172.1_2289208_2290300_+	NA	NA|35aa|down_0|NZ_CP029172.1_2290797_2290902_-	NA	NA|53aa|down_1|NZ_CP029172.1_2291581_2291740_+	NA	NA|286aa|down_2|NZ_CP029172.1_2292397_2293255_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|NZ_CP029172.1_2293322_2294105_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|203aa|down_4|NZ_CP029172.1_2294394_2295003_-	pfam08937, DUF1863, MTH538 TIR-like domain (DUF1863)	NA|345aa|down_5|NZ_CP029172.1_2295030_2296065_-	pfam13676, TIR_2, TIR domain	NA|490aa|down_6|NZ_CP029172.1_2296158_2297628_-	pfam18185, STALD, Sir2- and TIR-associating SLOG family	NA|97aa|down_7|NZ_CP029172.1_2297687_2297978_-	pfam11867, DUF3387, Domain of unknown function (DUF3387)	TnsE_C|135aa|down_8|NZ_CP029172.1_2298102_2298507_-	pfam18623, TnsE_C, TnsE C-terminal domain	NA|107aa|down_9|NZ_CP029172.1_2298684_2299005_-	NA
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	8	2454192-2454277	8	CRISPRCasFinder	no	WYL	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Unclear	AAAGTCAGCTTACAATAATGTGCAAGTTGG	30	1	6	2454222-2454247|2454222-2454247|2454222-2454247|2454222-2454247|2454222-2454247|2454222-2454247	NZ_CP029172.1_998428-998403|NZ_CP029172.1_1002548-1002573|NZ_CP029172.1_1047483-1047508|NZ_CP029172.1_1494311-1494336|NZ_CP029172.1_2245799-2245824|NZ_CP029172.1_2586070-2586045	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|65aa|up_6|NZ_CP029172.1_2446994_2447189_-,NA|78aa|down_1|NZ_CP029172.1_2455227_2455461_-,NA|110aa|down_8|NZ_CP029172.1_2463549_2463879_+	NA|248aa|up_9|NZ_CP029172.1_2442783_2443527_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|652aa|up_8|NZ_CP029172.1_2443552_2445508_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|270aa|up_7|NZ_CP029172.1_2446116_2446926_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|65aa|up_6|NZ_CP029172.1_2446994_2447189_-	NA	NA|467aa|up_5|NZ_CP029172.1_2447362_2448763_-	TIGR00931, Uncharacterized_Na+/H+_antiporter_HI_1107, Na+/H+ antiporter NhaC	NA|361aa|up_4|NZ_CP029172.1_2448857_2449940_-	pfam02317, Octopine_DH, NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain	NA|141aa|up_3|NZ_CP029172.1_2450187_2450610_+	COG3296, COG3296, Uncharacterized protein conserved in bacteria [Function unknown]	NA|167aa|up_2|NZ_CP029172.1_2450846_2451347_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|318aa|up_1|NZ_CP029172.1_2451709_2452663_+	cd12178, 2-Hacid_dh_13, Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains	NA|375aa|up_0|NZ_CP029172.1_2452754_2453879_-	PRK06753, PRK06753, hypothetical protein; Provisional	NA|213aa|down_0|NZ_CP029172.1_2454429_2455068_-	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|78aa|down_1|NZ_CP029172.1_2455227_2455461_-	NA	NA|158aa|down_2|NZ_CP029172.1_2455755_2456229_-	COG2427, COG2427, Uncharacterized conserved protein [Function unknown]	NA|985aa|down_3|NZ_CP029172.1_2456228_2459183_-	COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General function prediction only]	NA|308aa|down_4|NZ_CP029172.1_2459784_2460708_-	PRK09379, PRK09379, LytR family transcriptional regulator	NA|266aa|down_5|NZ_CP029172.1_2460864_2461662_-	COG0483, SuhB, Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]	WYL|231aa|down_6|NZ_CP029172.1_2462046_2462739_+	COG2378, COG2378, Predicted transcriptional regulator [Transcription]	NA|246aa|down_7|NZ_CP029172.1_2462763_2463501_-	pfam02517, Abi, CAAX protease self-immunity	NA|110aa|down_8|NZ_CP029172.1_2463549_2463879_+	NA	NA|291aa|down_9|NZ_CP029172.1_2464323_2465196_+	COG1737, RpiR, Transcriptional regulators [Transcription]
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	9	2570609-2570703	9	CRISPRCasFinder	no		WYL,csa3,cas3,DEDDh,DinG,TnsE_C	Orphan	TTCTTCAAATTTATTTGTTAGAAAGGC	27	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,cas3,DEDDh,DinG,TnsE_C	NA|35aa|up_2|NZ_CP029172.1_2568329_2568434_+,NA|40aa|down_0|NZ_CP029172.1_2570881_2571001_-	NA|200aa|up_9|NZ_CP029172.1_2561806_2562406_-	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]	NA|121aa|up_8|NZ_CP029172.1_2562424_2562787_-	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|417aa|up_7|NZ_CP029172.1_2563041_2564292_+	pfam02388, FemAB, FemAB family	NA|244aa|up_6|NZ_CP029172.1_2564388_2565120_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|240aa|up_5|NZ_CP029172.1_2565116_2565836_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|260aa|up_4|NZ_CP029172.1_2565816_2566596_-	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|480aa|up_3|NZ_CP029172.1_2566716_2568156_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|35aa|up_2|NZ_CP029172.1_2568329_2568434_+	NA	NA|229aa|up_1|NZ_CP029172.1_2568587_2569274_-	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|289aa|up_0|NZ_CP029172.1_2569600_2570467_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|40aa|down_0|NZ_CP029172.1_2570881_2571001_-	NA	NA|437aa|down_1|NZ_CP029172.1_2571095_2572406_+	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|310aa|down_2|NZ_CP029172.1_2572941_2573871_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|316aa|down_3|NZ_CP029172.1_2574438_2575386_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|326aa|down_4|NZ_CP029172.1_2575387_2576365_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|down_5|NZ_CP029172.1_2576416_2576884_-	pfam06177, QueT, QueT transporter	NA|231aa|down_6|NZ_CP029172.1_2576894_2577587_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|down_7|NZ_CP029172.1_2577597_2578713_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|336aa|down_8|NZ_CP029172.1_2578690_2579698_-	PRK06256, PRK06256, biotin synthase; Validated	NA|453aa|down_9|NZ_CP029172.1_2579699_2581058_-	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	10	2630333-2630427	10	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_CP029172.1_2619918_2620665_+,NA|121aa|down_0|NZ_CP029172.1_2631095_2631458_-,NA|105aa|down_9|NZ_CP029172.1_2639602_2639917_+	NA|249aa|up_9|NZ_CP029172.1_2619918_2620665_+	NA	NA|398aa|up_8|NZ_CP029172.1_2620888_2622082_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|250aa|up_7|NZ_CP029172.1_2622093_2622843_-	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_CP029172.1_2622835_2623651_-	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_CP029172.1_2623647_2624517_-	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_CP029172.1_2624513_2625449_-	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_CP029172.1_2625461_2627060_-	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|434aa|up_2|NZ_CP029172.1_2627202_2628504_-	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|273aa|up_1|NZ_CP029172.1_2628496_2629315_-	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|274aa|up_0|NZ_CP029172.1_2629325_2630147_-	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|121aa|down_0|NZ_CP029172.1_2631095_2631458_-	NA	NA|273aa|down_1|NZ_CP029172.1_2631720_2632539_-	PRK08589, PRK08589, SDR family oxidoreductase	NA|513aa|down_2|NZ_CP029172.1_2632772_2634311_+	pfam03806, ABG_transport, AbgT putative transporter family	NA|141aa|down_3|NZ_CP029172.1_2634422_2634845_-	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|133aa|down_4|NZ_CP029172.1_2635316_2635715_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|137aa|down_5|NZ_CP029172.1_2635741_2636152_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|141aa|down_6|NZ_CP029172.1_2636606_2637029_-	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|391aa|down_7|NZ_CP029172.1_2637089_2638262_+	pfam00872, Transposase_mut, Transposase, Mutator family	NA|403aa|down_8|NZ_CP029172.1_2638388_2639597_+	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_9|NZ_CP029172.1_2639602_2639917_+	NA
GCF_003111745.1_ASM311174v1	NZ_CP029172	Staphylococcus aureus strain PTDrAP2 chromosome, complete genome	11	2659610-2659720	11	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_3|NZ_CP029172.1_2653913_2654180_+,NA|103aa|up_2|NZ_CP029172.1_2654323_2654632_+,NA|98aa|down_0|NZ_CP029172.1_2662526_2662820_-	NA|262aa|up_9|NZ_CP029172.1_2646659_2647445_-	pfam04507, DUF576, Csa1 family	NA|255aa|up_8|NZ_CP029172.1_2647692_2648457_-	pfam04507, DUF576, Csa1 family	NA|258aa|up_7|NZ_CP029172.1_2648568_2649342_-	pfam04507, DUF576, Csa1 family	NA|310aa|up_6|NZ_CP029172.1_2649584_2650514_-	pfam09019, EcoRII-C, EcoRII C terminal	NA|398aa|up_5|NZ_CP029172.1_2650609_2651803_+	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|584aa|up_4|NZ_CP029172.1_2651878_2653630_+	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|89aa|up_3|NZ_CP029172.1_2653913_2654180_+	NA	NA|103aa|up_2|NZ_CP029172.1_2654323_2654632_+	NA	NA|289aa|up_1|NZ_CP029172.1_2654757_2655624_-	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|952aa|up_0|NZ_CP029172.1_2655803_2658659_-	pfam10425, SdrG_C_C, C-terminus of bacterial fibrinogen-binding adhesin	NA|98aa|down_0|NZ_CP029172.1_2662526_2662820_-	NA	NA|453aa|down_1|NZ_CP029172.1_2662860_2664219_-	TIGR00791, Gluconate_permease, gluconate transporter	NA|518aa|down_2|NZ_CP029172.1_2664335_2665889_-	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|226aa|down_3|NZ_CP029172.1_2665913_2666591_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|255aa|down_4|NZ_CP029172.1_2666747_2667512_-	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|231aa|down_5|NZ_CP029172.1_2667676_2668369_-	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|139aa|down_6|NZ_CP029172.1_2668599_2669016_-	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|608aa|down_7|NZ_CP029172.1_2669154_2670978_-	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|391aa|down_8|NZ_CP029172.1_2671360_2672533_-	pfam00872, Transposase_mut, Transposase, Mutator family	NA|426aa|down_9|NZ_CP029172.1_2673222_2674500_-	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily
