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_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	1	433451-433551	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|70aa|up_8|NC_010079.1_425023_425233_-,NA|128aa|up_6|NC_010079.1_426057_426441_-,NA|34aa|up_0|NC_010079.1_432675_432777_+,NA|221aa|down_1|NC_010079.1_434641_435304_-,NA|179aa|down_7|NC_010079.1_441395_441932_-	NA|84aa|up_9|NC_010079.1_424733_424985_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NC_010079.1_425023_425233_-	NA	NA|194aa|up_7|NC_010079.1_425410_425992_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NC_010079.1_426057_426441_-	NA	NA|209aa|up_5|NC_010079.1_426695_427322_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NC_010079.1_427766_429290_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NC_010079.1_429305_429875_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NC_010079.1_430366_431122_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NC_010079.1_431202_432591_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NC_010079.1_432675_432777_+	NA	NA|319aa|down_0|NC_010079.1_433567_434524_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NC_010079.1_434641_435304_-	NA	NA|136aa|down_2|NC_010079.1_435446_435854_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NC_010079.1_436366_436945_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NC_010079.1_436944_438213_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NC_010079.1_438250_439717_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NC_010079.1_439741_441283_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NC_010079.1_441395_441932_-	NA	NA|235aa|down_8|NC_010079.1_442324_443029_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NC_010079.1_443427_443700_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	2	672616-672708	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|36aa|up_3|NC_010079.1_669100_669208_+,NA|169aa|down_4|NC_010079.1_676455_676962_+,NA|239aa|down_5|NC_010079.1_677123_677840_+	NA|313aa|up_9|NC_010079.1_663302_664241_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NC_010079.1_664451_664988_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NC_010079.1_665156_665633_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NC_010079.1_665672_666968_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NC_010079.1_666995_667517_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NC_010079.1_668015_669026_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NC_010079.1_669100_669208_+	NA	NA|139aa|up_2|NC_010079.1_669300_669717_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NC_010079.1_669713_671375_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NC_010079.1_671762_672398_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NC_010079.1_672776_673664_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NC_010079.1_673811_674762_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NC_010079.1_674816_675536_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NC_010079.1_675519_676320_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NC_010079.1_676455_676962_+	NA	NA|239aa|down_5|NC_010079.1_677123_677840_+	NA	NA|263aa|down_6|NC_010079.1_678008_678797_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NC_010079.1_679047_679422_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|179aa|down_8|NC_010079.1_681137_681674_-	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|168aa|down_9|NC_010079.1_681654_682158_-	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	3	748957-749055	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAGAGCCCCTAATTAATAAATTAAAAGGGG	30	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|39aa|up_2|NC_010079.1_746984_747101_+,NA|230aa|down_2|NC_010079.1_750876_751566_-,NA|100aa|down_5|NC_010079.1_752735_753035_+	NA|206aa|up_9|NC_010079.1_738132_738750_+	COG1392, COG1392, Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]	NA|336aa|up_8|NC_010079.1_738765_739773_+	pfam01384, PHO4, Phosphate transporter family	NA|266aa|up_7|NC_010079.1_740360_741158_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|215aa|up_6|NC_010079.1_741518_742163_+	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|120aa|up_5|NC_010079.1_745154_745514_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|239aa|up_4|NC_010079.1_745703_746420_+	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|158aa|up_3|NC_010079.1_746419_746893_+	COG3542, COG3542, Uncharacterized conserved protein [Function unknown]	NA|39aa|up_2|NC_010079.1_746984_747101_+	NA	NA|215aa|up_1|NC_010079.1_747245_747890_+	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|289aa|up_0|NC_010079.1_748005_748872_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|407aa|down_0|NC_010079.1_749072_750293_+	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|163aa|down_1|NC_010079.1_750289_750778_+	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|230aa|down_2|NC_010079.1_750876_751566_-	NA	NA|148aa|down_3|NC_010079.1_751692_752136_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|132aa|down_4|NC_010079.1_752202_752598_+	PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional	NA|100aa|down_5|NC_010079.1_752735_753035_+	NA	NA|181aa|down_6|NC_010079.1_753114_753657_+	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|189aa|down_7|NC_010079.1_753752_754319_-	COG1611, COG1611, Predicted Rossmann fold nucleotide-binding protein [General function prediction only]	NA|153aa|down_8|NC_010079.1_754320_754779_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|228aa|down_9|NC_010079.1_754781_755465_-	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	4	848357-848442	4	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	5	848387-848412|848387-848412|848387-848412|848387-848412|848387-848412	NC_010079.1_811349-811324|NC_010079.1_2830381-2830406|NC_010079.1_2830437-2830462|NC_010079.1_811405-811380|NC_010079.1_954496-954471	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|NC_010079.1_835609_836449_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NC_010079.1_836622_837273_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NC_010079.1_837269_837506_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NC_010079.1_837774_839760_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NC_010079.1_839767_842614_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NC_010079.1_843275_844208_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NC_010079.1_844213_845053_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NC_010079.1_845060_845546_+	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|NC_010079.1_845553_846993_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NC_010079.1_847059_847995_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NC_010079.1_848874_849786_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NC_010079.1_849782_850778_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NC_010079.1_850887_851832_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NC_010079.1_852405_852993_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NC_010079.1_853235_854138_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NC_010079.1_854839_855469_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NC_010079.1_856228_857242_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NC_010079.1_857294_858305_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NC_010079.1_858443_859634_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NC_010079.1_859755_860517_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	5	891686-891767	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	891710-891743|891710-891743	NC_010079.1_1380703-1380670|NC_010079.1_1469862-1469895	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|194aa|up_9|NC_010079.1_884789_885371_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NC_010079.1_885443_886061_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NC_010079.1_886215_886710_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NC_010079.1_887108_887531_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NC_010079.1_887678_888395_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NC_010079.1_888477_889017_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NC_010079.1_889166_889487_-	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|NC_010079.1_889630_889987_+	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|NC_010079.1_890144_890525_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NC_010079.1_890703_891582_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NC_010079.1_892323_892710_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NC_010079.1_892702_892999_+	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|NC_010079.1_893248_894274_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NC_010079.1_894266_894962_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NC_010079.1_894979_895801_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|NC_010079.1_895943_897164_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|NC_010079.1_897251_897980_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|243aa|down_7|NC_010079.1_898003_898732_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|153aa|down_8|NC_010079.1_898748_899207_-	pfam06114, Peptidase_M78, IrrE N-terminal-like domain	NA|111aa|down_9|NC_010079.1_899218_899551_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	6	954497-954779	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	6	954527-954552|954527-954552|954527-954552|954527-954552|954641-954666|954641-954666	NC_010079.1_954471-954496|NC_010079.1_811324-811349|NC_010079.1_2830406-2830381|NC_010079.1_2830462-2830437|NC_010079.1_848468-848443|NC_010079.1_394784-394809	NA	4	4	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NC_010079.1_943385_944882_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|NC_010079.1_944874_945216_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NC_010079.1_945215_945644_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NC_010079.1_945636_948042_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NC_010079.1_948172_948556_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NC_010079.1_948619_949213_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NC_010079.1_949628_950006_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NC_010079.1_950367_951495_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NC_010079.1_951802_952993_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NC_010079.1_953101_954346_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NC_010079.1_954848_955778_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NC_010079.1_956019_957399_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NC_010079.1_957388_958594_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NC_010079.1_958944_960276_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NC_010079.1_960600_961176_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NC_010079.1_961180_961705_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NC_010079.1_961720_962296_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NC_010079.1_962455_965932_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NC_010079.1_965932_969586_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NC_010079.1_969751_970654_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	7	1088169-1088256	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCTAACAACTAAAAGTTGTAAGG	25	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|45aa|down_0|NC_010079.1_1088265_1088400_-,NA|432aa|down_1|NC_010079.1_1088551_1089847_+	NA|224aa|up_9|NC_010079.1_1075959_1076631_+	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ	NA|730aa|up_8|NC_010079.1_1076623_1078813_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_7|NC_010079.1_1078791_1080276_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_6|NC_010079.1_1080268_1081297_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_5|NC_010079.1_1081299_1081866_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_4|NC_010079.1_1081880_1083359_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_3|NC_010079.1_1083380_1084628_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_2|NC_010079.1_1084892_1085699_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_1|NC_010079.1_1085691_1087092_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_0|NC_010079.1_1087106_1087682_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|45aa|down_0|NC_010079.1_1088265_1088400_-	NA	NA|432aa|down_1|NC_010079.1_1088551_1089847_+	NA	NA|391aa|down_2|NC_010079.1_1090271_1091444_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|NC_010079.1_1091497_1092040_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|NC_010079.1_1092193_1092460_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|NC_010079.1_1092462_1094181_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|NC_010079.1_1094417_1094651_-	cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile	NA|454aa|down_7|NC_010079.1_1094848_1096210_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|NC_010079.1_1096206_1097226_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|NC_010079.1_1097358_1098021_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	8	2030203-2030281	7	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	6	2030226-2030258|2030226-2030258|2030226-2030258|2030226-2030258|2030226-2030258|2030226-2030258	NC_010079.1_848423-848455|NC_010079.1_1172532-1172500|NC_010079.1_1380657-1380625|NC_010079.1_1695141-1695173|NC_010079.1_2665031-2665063|NC_010079.1_1469908-1469940	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|NC_010079.1_2024397_2024673_+,NA|129aa|up_1|NC_010079.1_2028658_2029045_-,NA|138aa|down_1|NC_010079.1_2032023_2032437_-,NA|37aa|down_2|NC_010079.1_2032465_2032576_-,NA|31aa|down_6|NC_010079.1_2035581_2035674_-	NA|419aa|up_9|NC_010079.1_2022320_2023577_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NC_010079.1_2023579_2023780_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NC_010079.1_2023926_2024391_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NC_010079.1_2024397_2024673_+	NA	NA|406aa|up_5|NC_010079.1_2024950_2026168_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NC_010079.1_2026283_2026913_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|NC_010079.1_2026902_2027946_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NC_010079.1_2027942_2028644_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NC_010079.1_2028658_2029045_-	NA	NA|253aa|up_0|NC_010079.1_2029261_2030020_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NC_010079.1_2030547_2031534_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NC_010079.1_2032023_2032437_-	NA	NA|37aa|down_2|NC_010079.1_2032465_2032576_-	NA	NA|244aa|down_3|NC_010079.1_2032661_2033393_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NC_010079.1_2033394_2034708_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NC_010079.1_2034999_2035500_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NC_010079.1_2035581_2035674_-	NA	DEDDh|185aa|down_7|NC_010079.1_2035888_2036443_+	cd06130, DNA_pol_III_epsilon_like, an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III	NA|357aa|down_8|NC_010079.1_2036510_2037581_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NC_010079.1_2037827_2038358_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	9	2265155-2265305	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	AACTTTAGTTGTTAGGGGCTCTTATGCA	28	0	0	NA	NA	NA	2	2	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|NC_010079.1_2260026_2260257_-,NA|364aa|up_0|NC_010079.1_2264045_2265137_+,NA|35aa|down_0|NC_010079.1_2265636_2265741_-,NA|31aa|down_2|NC_010079.1_2267852_2267945_+	NA|237aa|up_9|NC_010079.1_2255636_2256347_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NC_010079.1_2256467_2256911_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NC_010079.1_2257110_2257524_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NC_010079.1_2257981_2259355_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NC_010079.1_2260026_2260257_-	NA	NA|313aa|up_4|NC_010079.1_2260287_2261226_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NC_010079.1_2261660_2262326_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NC_010079.1_2262477_2262798_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NC_010079.1_2262799_2263780_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NC_010079.1_2264045_2265137_+	NA	NA|35aa|down_0|NC_010079.1_2265636_2265741_-	NA	NA|379aa|down_1|NC_010079.1_2266427_2267564_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NC_010079.1_2267852_2267945_+	NA	NA|286aa|down_3|NC_010079.1_2268649_2269507_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NC_010079.1_2269574_2270357_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NC_010079.1_2270588_2272394_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NC_010079.1_2273074_2274613_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NC_010079.1_2274647_2276780_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NC_010079.1_2276791_2277226_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NC_010079.1_2277225_2278332_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_000017085.1_ASM1708v1	NC_010079	Staphylococcus aureus subsp. aureus USA300_TCH1516, complete sequence	10	2389073-2389266	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	13	2389096-2389128|2389096-2389128|2389096-2389128|2389096-2389128|2389096-2389128|2389152-2389187|2389152-2389187|2389152-2389187|2389152-2389187|2389211-2389243|2389211-2389243|2389211-2389243|2389211-2389243	NC_010079.1_848423-848455|NC_010079.1_1172532-1172500|NC_010079.1_1380657-1380625|NC_010079.1_1469908-1469940|NC_010079.1_2665031-2665063|NC_010079.1_1172479-1172444|NC_010079.1_1873629-1873594|NC_010079.1_1695080-1695115|NC_010079.1_2041029-2041064|NC_010079.1_848423-848455|NC_010079.1_1172532-1172500|NC_010079.1_1380657-1380625|NC_010079.1_2665031-2665063	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NC_010079.1_2379600_2379765_+,NA|106aa|up_8|NC_010079.1_2380009_2380327_+,NA|84aa|up_5|NC_010079.1_2385451_2385703_+,NA|57aa|up_0|NC_010079.1_2388842_2389013_+,NA	NA|55aa|up_9|NC_010079.1_2379600_2379765_+	NA	NA|106aa|up_8|NC_010079.1_2380009_2380327_+	NA	NA|1056aa|up_7|NC_010079.1_2380513_2383681_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NC_010079.1_2383797_2385063_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NC_010079.1_2385451_2385703_+	NA	NA|255aa|up_4|NC_010079.1_2385694_2386459_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NC_010079.1_2386620_2387061_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NC_010079.1_2387053_2388265_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NC_010079.1_2388366_2388717_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NC_010079.1_2388842_2389013_+	NA	NA|341aa|down_0|NC_010079.1_2389407_2390430_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NC_010079.1_2390449_2391049_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NC_010079.1_2391055_2391289_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NC_010079.1_2391294_2391741_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NC_010079.1_2391754_2392240_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NC_010079.1_2392236_2393496_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NC_010079.1_2393558_2394053_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NC_010079.1_2394054_2394561_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NC_010079.1_2394591_2395596_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NC_010079.1_2395765_2396371_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
