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_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	1	457477-457577	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_002951.2_449049_449259_-,NA|128aa|up_6|NC_002951.2_450083_450467_-,NA|34aa|up_0|NC_002951.2_456701_456803_+,NA|221aa|down_1|NC_002951.2_458667_459330_-,NA|179aa|down_7|NC_002951.2_465420_465957_-	NA|84aa|up_9|NC_002951.2_448759_449011_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NC_002951.2_449049_449259_-	NA	NA|194aa|up_7|NC_002951.2_449436_450018_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NC_002951.2_450083_450467_-	NA	NA|209aa|up_5|NC_002951.2_450721_451348_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NC_002951.2_451792_453316_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NC_002951.2_453331_453901_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NC_002951.2_454392_455148_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NC_002951.2_455228_456617_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NC_002951.2_456701_456803_+	NA	NA|319aa|down_0|NC_002951.2_457593_458550_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NC_002951.2_458667_459330_-	NA	NA|136aa|down_2|NC_002951.2_459472_459880_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NC_002951.2_460391_460970_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NC_002951.2_460969_462238_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NC_002951.2_462275_463742_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NC_002951.2_463766_465308_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NC_002951.2_465420_465957_-	NA	NA|235aa|down_8|NC_002951.2_466349_467054_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NC_002951.2_467452_467725_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	2	693544-693636	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_002951.2_690027_690135_+,NA|169aa|down_4|NC_002951.2_697383_697890_+,NA|239aa|down_5|NC_002951.2_698051_698768_+	NA|313aa|up_9|NC_002951.2_684229_685168_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NC_002951.2_685378_685915_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NC_002951.2_686083_686560_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NC_002951.2_686599_687895_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NC_002951.2_687922_688444_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NC_002951.2_688942_689953_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NC_002951.2_690027_690135_+	NA	NA|139aa|up_2|NC_002951.2_690227_690644_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NC_002951.2_690640_692302_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NC_002951.2_692690_693326_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NC_002951.2_693704_694592_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NC_002951.2_694739_695690_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NC_002951.2_695744_696464_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NC_002951.2_696447_697248_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NC_002951.2_697383_697890_+	NA	NA|239aa|down_5|NC_002951.2_698051_698768_+	NA	NA|263aa|down_6|NC_002951.2_698936_699725_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NC_002951.2_699975_700350_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NC_002951.2_701297_702227_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NC_002951.2_702421_702646_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	3	809623-809705	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|69aa|up_9|NC_002951.2_796223_796430_+,NA|34aa|down_1|NC_002951.2_811161_811263_+,NA|52aa|down_8|NC_002951.2_819442_819598_+	NA|69aa|up_9|NC_002951.2_796223_796430_+	NA	NA|237aa|up_8|NC_002951.2_796517_797228_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NC_002951.2_797211_798216_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NC_002951.2_798689_800630_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NC_002951.2_800900_802784_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NC_002951.2_802795_804577_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NC_002951.2_804798_805776_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NC_002951.2_805768_807283_+	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|353aa|up_1|NC_002951.2_807522_808581_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NC_002951.2_808931_809474_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NC_002951.2_810153_811071_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NC_002951.2_811161_811263_+	NA	NA|502aa|down_2|NC_002951.2_811340_812846_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_3|NC_002951.2_813186_813687_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_4|NC_002951.2_813706_814573_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|133aa|down_5|NC_002951.2_815373_815772_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_6|NC_002951.2_815734_817840_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_7|NC_002951.2_817957_818929_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|52aa|down_8|NC_002951.2_819442_819598_+	NA	NA|324aa|down_9|NC_002951.2_819636_820608_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	4	850675-850755	4	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	TTCTTTATGTTGGGGCCCCGCCAACT	26	1	9	850701-850729|850701-850729|850701-850729|850701-850729|850701-850729|850701-850729|850701-850729|850701-850729|850701-850729	NC_002951.2_2766975-2767003|NC_002951.2_418972-418944|NC_002951.2_419027-418999|NC_002951.2_1850398-1850370|NC_002951.2_899299-899327|NC_002951.2_983692-983720|NC_002951.2_1671653-1671681|NC_002951.2_2019627-2019655|NC_002951.2_2516933-2516905	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA|35aa|up_7|NC_002951.2_841588_841693_+,NA|36aa|up_5|NC_002951.2_843125_843233_+,NA	NA|191aa|up_9|NC_002951.2_838029_838602_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_8|NC_002951.2_839015_841547_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|35aa|up_7|NC_002951.2_841588_841693_+	NA	NA|370aa|up_6|NC_002951.2_841861_842972_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|36aa|up_5|NC_002951.2_843125_843233_+	NA	NA|280aa|up_4|NC_002951.2_843380_844220_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|NC_002951.2_844393_845044_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|NC_002951.2_845040_845277_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|NC_002951.2_845545_847531_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|NC_002951.2_847538_850385_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|NC_002951.2_850991_851924_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|NC_002951.2_851929_852769_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|NC_002951.2_852776_853262_+	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins	NA|480aa|down_3|NC_002951.2_853269_854709_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|NC_002951.2_854775_855711_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|NC_002951.2_856420_857332_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|NC_002951.2_857328_858324_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|NC_002951.2_858433_859378_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|NC_002951.2_859950_860538_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_9|NC_002951.2_860780_861683_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	5	899233-899314	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	899257-899290|899257-899290	NC_002951.2_1390559-1390526|NC_002951.2_1478971-1479004	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA|144aa|down_8|NC_002951.2_906349_906781_-	NA|194aa|up_9|NC_002951.2_892336_892918_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NC_002951.2_892990_893608_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NC_002951.2_893762_894257_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NC_002951.2_894655_895078_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NC_002951.2_895225_895942_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NC_002951.2_896024_896564_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NC_002951.2_896713_897034_-	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_002951.2_897177_897534_+	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_002951.2_897691_898072_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NC_002951.2_898250_899129_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NC_002951.2_899870_900257_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NC_002951.2_900249_900546_+	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_002951.2_900795_901821_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NC_002951.2_901813_902509_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NC_002951.2_902526_903348_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|NC_002951.2_903490_904711_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|NC_002951.2_904799_905528_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|243aa|down_7|NC_002951.2_905551_906280_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|144aa|down_8|NC_002951.2_906349_906781_-	NA	NA|153aa|down_9|NC_002951.2_906797_907256_-	pfam06114, Peptidase_M78, IrrE N-terminal-like domain
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	6	964023-964305	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	5	964053-964078|964053-964078|964053-964078|964053-964078|964167-964192	NC_002951.2_963997-964022|NC_002951.2_819095-819120|NC_002951.2_1182359-1182384|NC_002951.2_2766968-2766943|NC_002951.2_418810-418835	NA	4	4	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NC_002951.2_952911_954408_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|NC_002951.2_954400_954742_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NC_002951.2_954741_955170_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NC_002951.2_955162_957568_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NC_002951.2_957698_958082_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NC_002951.2_958145_958739_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NC_002951.2_959154_959532_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NC_002951.2_959893_961021_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NC_002951.2_961328_962519_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NC_002951.2_962627_963872_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NC_002951.2_964374_965304_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NC_002951.2_965545_966925_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NC_002951.2_966914_968120_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NC_002951.2_968470_969802_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NC_002951.2_970126_970702_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NC_002951.2_970706_971231_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NC_002951.2_971246_971822_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NC_002951.2_971981_975458_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NC_002951.2_975458_979112_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NC_002951.2_979277_980180_+	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_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	7	1182189-1182375	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGCGGGGCCCCAACATAGA	19	3	25	1182208-1182244|1182208-1182244|1182208-1182244|1182208-1182244|1182208-1182244|1182208-1182244|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182264-1182300|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356|1182320-1182356	NC_002951.2_1850367-1850403|NC_002951.2_899330-899294|NC_002951.2_1671684-1671648|NC_002951.2_2019658-2019622|NC_002951.2_2516902-2516938|NC_002951.2_2767006-2766970|NC_002951.2_418827-418863|NC_002951.2_1081444-1081408|NC_002951.2_1390485-1390521|NC_002951.2_1479045-1479009|NC_002951.2_1671742-1671706|NC_002951.2_2601607-2601571|NC_002951.2_856111-856075|NC_002951.2_1178296-1178332|NC_002951.2_1182376-1182412|NC_002951.2_149328-149364|NC_002951.2_692582-692618|NC_002951.2_808677-808641|NC_002951.2_809611-809647|NC_002951.2_1390543-1390579|NC_002951.2_1478987-1478951|NC_002951.2_2010368-2010332|NC_002951.2_1107704-1107668|NC_002951.2_2491654-2491618|NC_002951.2_1178352-1178388	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|31aa|up_9|NC_002951.2_1174843_1174936_-,NA|169aa|up_7|NC_002951.2_1175968_1176475_+,NA|62aa|up_4|NC_002951.2_1178556_1178742_-,NA|78aa|up_3|NC_002951.2_1179363_1179597_-,NA|49aa|up_1|NC_002951.2_1181705_1181852_+,NA|75aa|up_0|NC_002951.2_1181808_1182033_+,NA|76aa|down_6|NC_002951.2_1189388_1189616_+	NA|31aa|up_9|NC_002951.2_1174843_1174936_-	NA	NA|134aa|up_8|NC_002951.2_1174895_1175297_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|NC_002951.2_1175968_1176475_+	NA	NA|166aa|up_6|NC_002951.2_1176733_1177231_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|NC_002951.2_1177384_1177735_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|NC_002951.2_1178556_1178742_-	NA	NA|78aa|up_3|NC_002951.2_1179363_1179597_-	NA	NA|320aa|up_2|NC_002951.2_1180073_1181033_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|NC_002951.2_1181705_1181852_+	NA	NA|75aa|up_0|NC_002951.2_1181808_1182033_+	NA	NA|239aa|down_0|NC_002951.2_1182589_1183306_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|NC_002951.2_1183413_1184139_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|NC_002951.2_1184233_1184959_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|NC_002951.2_1185396_1186398_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|311aa|down_4|NC_002951.2_1186420_1187353_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|NC_002951.2_1187524_1189081_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|NC_002951.2_1189388_1189616_+	NA	NA|316aa|down_7|NC_002951.2_1189920_1190868_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|NC_002951.2_1191116_1191305_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|NC_002951.2_1192216_1192351_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	8	1850407-1850633	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGGCCCCAACACAGAAGCTGGCCAATAGTCAGCTTTCAATAATGTGCAAGTTGG	54	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|199aa|up_9|NC_002951.2_1840962_1841559_-	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|286aa|up_8|NC_002951.2_1841587_1842445_-	PRK13668, PRK13668, hypothetical protein; Provisional	NA|104aa|up_7|NC_002951.2_1842544_1842856_-	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|359aa|up_6|NC_002951.2_1842920_1843997_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|104aa|up_5|NC_002951.2_1844083_1844395_+	COG5584, COG5584, Predicted small secreted protein [Function unknown]	NA|281aa|up_4|NC_002951.2_1844519_1845362_-	cd07728, YtnP-like_MBL-fold, Bacillus subtilis YtnP and related proteins; MBL-fold metallo hydrolase domain	NA|215aa|up_3|NC_002951.2_1845831_1846476_-	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed	NA|264aa|up_2|NC_002951.2_1846490_1847282_-	COG0510, ycfN, Thiamine kinase and related kinases [Coenzyme transport and metabolism]	NA|283aa|up_1|NC_002951.2_1847831_1848680_-	TIGR01121, D-alanine_aminotransferase, D-amino acid aminotransferase	NA|470aa|up_0|NC_002951.2_1848683_1850093_-	PRK07318, PRK07318, dipeptidase PepV; Reviewed	NA|141aa|down_0|NC_002951.2_1851012_1851435_-	pfam12732, YtxH, YtxH-like protein	NA|232aa|down_1|NC_002951.2_1851451_1852147_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|554aa|down_2|NC_002951.2_1852143_1853805_-	cd13124, MATE_SpoVB_like, Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins	NA|423aa|down_3|NC_002951.2_1854211_1855480_+	pfam03486, HI0933_like, HI0933-like protein	NA|2187aa|down_4|NC_002951.2_1855596_1862157_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|104aa|down_5|NC_002951.2_1862482_1862794_-	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein	NA|806aa|down_6|NC_002951.2_1862815_1865233_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|394aa|down_7|NC_002951.2_1865520_1866702_-	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|318aa|down_8|NC_002951.2_1866811_1867765_+	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|188aa|down_9|NC_002951.2_1867761_1868325_+	pfam06962, rRNA_methylase, Putative rRNA methylase
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	9	2008860-2008938	7	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	4	2008883-2008915|2008883-2008915|2008883-2008915|2008883-2008915	NC_002951.2_1390513-1390481|NC_002951.2_1671714-1671746|NC_002951.2_2601579-2601611|NC_002951.2_1479017-1479049	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|NC_002951.2_2003054_2003330_+,NA|129aa|up_1|NC_002951.2_2007315_2007702_-,NA|138aa|down_1|NC_002951.2_2010621_2011035_-,NA|37aa|down_2|NC_002951.2_2011063_2011174_-,NA|31aa|down_6|NC_002951.2_2014179_2014272_-	NA|419aa|up_9|NC_002951.2_2000977_2002234_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NC_002951.2_2002236_2002437_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NC_002951.2_2002583_2003048_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NC_002951.2_2003054_2003330_+	NA	NA|406aa|up_5|NC_002951.2_2003607_2004825_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NC_002951.2_2004940_2005570_-	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_002951.2_2005559_2006603_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NC_002951.2_2006599_2007301_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NC_002951.2_2007315_2007702_-	NA	NA|253aa|up_0|NC_002951.2_2007918_2008677_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NC_002951.2_2009204_2010191_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NC_002951.2_2010621_2011035_-	NA	NA|37aa|down_2|NC_002951.2_2011063_2011174_-	NA	NA|244aa|down_3|NC_002951.2_2011259_2011991_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NC_002951.2_2011992_2013306_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NC_002951.2_2013597_2014098_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NC_002951.2_2014179_2014272_-	NA	DEDDh|185aa|down_7|NC_002951.2_2014486_2015041_+	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_002951.2_2015108_2016179_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NC_002951.2_2016425_2016956_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	10	2200955-2201035	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	TTACAACTTTAGTTGTTAGGGGCT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|NC_002951.2_2195830_2196061_-,NA|364aa|up_0|NC_002951.2_2199849_2200941_+,NA|35aa|down_0|NC_002951.2_2201374_2201479_-,NA|31aa|down_2|NC_002951.2_2203590_2203683_+	NA|237aa|up_9|NC_002951.2_2191440_2192151_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NC_002951.2_2192271_2192715_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NC_002951.2_2192914_2193328_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NC_002951.2_2193785_2195159_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NC_002951.2_2195830_2196061_-	NA	NA|313aa|up_4|NC_002951.2_2196091_2197030_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NC_002951.2_2197464_2198130_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NC_002951.2_2198281_2198602_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NC_002951.2_2198603_2199584_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NC_002951.2_2199849_2200941_+	NA	NA|35aa|down_0|NC_002951.2_2201374_2201479_-	NA	NA|379aa|down_1|NC_002951.2_2202165_2203302_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NC_002951.2_2203590_2203683_+	NA	NA|286aa|down_3|NC_002951.2_2204387_2205245_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NC_002951.2_2205312_2206095_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NC_002951.2_2206326_2208132_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NC_002951.2_2208812_2210351_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NC_002951.2_2210385_2212518_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NC_002951.2_2212529_2212964_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NC_002951.2_2212963_2214070_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_000012045.1_ASM1204v1	NC_002951	Staphylococcus aureus subsp. aureus COL, complete sequence	11	2325056-2325249	3	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	9	2325079-2325111|2325079-2325111|2325079-2325111|2325135-2325170|2325135-2325170|2325135-2325170|2325194-2325226|2325194-2325226|2325194-2325226	NC_002951.2_1390513-1390481|NC_002951.2_1479017-1479049|NC_002951.2_2601579-2601611|NC_002951.2_1850398-1850363|NC_002951.2_1671653-1671688|NC_002951.2_2019627-2019662|NC_002951.2_856083-856115|NC_002951.2_1390513-1390481|NC_002951.2_2601579-2601611	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NC_002951.2_2315583_2315748_+,NA|106aa|up_8|NC_002951.2_2315992_2316310_+,NA|84aa|up_5|NC_002951.2_2321434_2321686_+,NA|57aa|up_0|NC_002951.2_2324825_2324996_+,NA	NA|55aa|up_9|NC_002951.2_2315583_2315748_+	NA	NA|106aa|up_8|NC_002951.2_2315992_2316310_+	NA	NA|1056aa|up_7|NC_002951.2_2316496_2319664_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NC_002951.2_2319780_2321046_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NC_002951.2_2321434_2321686_+	NA	NA|255aa|up_4|NC_002951.2_2321677_2322442_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NC_002951.2_2322603_2323044_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NC_002951.2_2323036_2324248_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NC_002951.2_2324349_2324700_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NC_002951.2_2324825_2324996_+	NA	NA|341aa|down_0|NC_002951.2_2325390_2326413_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NC_002951.2_2326432_2327032_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NC_002951.2_2327038_2327272_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NC_002951.2_2327277_2327724_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NC_002951.2_2327737_2328223_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NC_002951.2_2328219_2329479_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NC_002951.2_2329541_2330036_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NC_002951.2_2330037_2330544_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NC_002951.2_2330574_2331579_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NC_002951.2_2331748_2332354_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
