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
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	1	441870-441970	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|129aa|up_6|LR134085.1_434476_434863_-,NA|86aa|up_4|LR134085.1_435813_436071_-,NA|221aa|down_1|LR134085.1_443060_443723_-,NA|179aa|down_7|LR134085.1_449814_450351_-	NA|88aa|up_9|LR134085.1_432589_432853_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|84aa|up_8|LR134085.1_433152_433404_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|194aa|up_7|LR134085.1_433829_434411_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|129aa|up_6|LR134085.1_434476_434863_-	NA	NA|209aa|up_5|LR134085.1_435114_435741_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|86aa|up_4|LR134085.1_435813_436071_-	NA	NA|508aa|up_3|LR134085.1_436185_437709_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_2|LR134085.1_437724_438294_-	TIGR03137, AhpC, peroxiredoxin	NA|269aa|up_1|LR134085.1_438734_439541_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_0|LR134085.1_439621_441010_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|319aa|down_0|LR134085.1_441986_442943_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|LR134085.1_443060_443723_-	NA	NA|136aa|down_2|LR134085.1_443865_444273_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|LR134085.1_444785_445364_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|LR134085.1_445363_446632_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|LR134085.1_446669_448136_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|LR134085.1_448160_449702_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|LR134085.1_449814_450351_-	NA	NA|208aa|down_8|LR134085.1_450825_451449_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|LR134085.1_451847_452120_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	2	685232-685324	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|LR134085.1_681715_681823_+,NA|169aa|down_4|LR134085.1_689071_689578_+,NA|239aa|down_5|LR134085.1_689739_690456_+	NA|313aa|up_9|LR134085.1_675917_676856_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|LR134085.1_677066_677603_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|LR134085.1_677771_678248_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|LR134085.1_678287_679583_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|169aa|up_5|LR134085.1_679625_680132_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|LR134085.1_680630_681641_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|LR134085.1_681715_681823_+	NA	NA|139aa|up_2|LR134085.1_681915_682332_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|LR134085.1_682328_683990_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|LR134085.1_684378_685014_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|LR134085.1_685392_686280_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|329aa|down_1|LR134085.1_686391_687378_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|LR134085.1_687432_688152_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|LR134085.1_688135_688936_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|LR134085.1_689071_689578_+	NA	NA|239aa|down_5|LR134085.1_689739_690456_+	NA	NA|263aa|down_6|LR134085.1_690624_691413_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|LR134085.1_691663_692038_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|LR134085.1_692985_693915_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|LR134085.1_694109_694334_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	3	801514-801596	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,NA	NA|203aa|up_9|LR134085.1_787440_788049_+	pfam01063, Aminotran_4, Amino-transferase class IV	NA|237aa|up_8|LR134085.1_788408_789119_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|LR134085.1_789102_790107_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|LR134085.1_790580_792521_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|626aa|up_5|LR134085.1_792797_794675_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|LR134085.1_794686_796468_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|LR134085.1_796689_797667_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|LR134085.1_797659_799174_+	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|LR134085.1_799413_800472_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|LR134085.1_800822_801365_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|LR134085.1_802044_802962_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|502aa|down_1|LR134085.1_803231_804737_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_2|LR134085.1_805077_805578_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|164aa|down_3|LR134085.1_805597_806089_-	pfam00892, EamA, EamA-like transporter family	NA|140aa|down_4|LR134085.1_806045_806465_-	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|LR134085.1_807265_807664_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_6|LR134085.1_807626_809732_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_7|LR134085.1_809849_810821_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|338aa|down_8|LR134085.1_811486_812500_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|319aa|down_9|LR134085.1_812486_813443_+	COG4605, CeuC, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	4	842567-842647	4	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	TTCTTTATGTTGGGGCCCCGCCAACT	26	1	8	842593-842621|842593-842621|842593-842621|842593-842621|842593-842621|842593-842621|842593-842621|842593-842621	LR134085.1_2803642-2803670|LR134085.1_403419-403391|LR134085.1_1847024-1846996|LR134085.1_904765-904793|LR134085.1_973267-973295|LR134085.1_1661750-1661778|LR134085.1_2014425-2014453|LR134085.1_2554220-2554192	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	cas3|361aa|up_9|LR134085.1_828111_829194_+	COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	NA|225aa|up_8|LR134085.1_829186_829861_+	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|191aa|up_7|LR134085.1_829921_830494_+	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|844aa|up_6|LR134085.1_830907_833439_+	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|331aa|up_5|LR134085.1_833871_834864_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|280aa|up_4|LR134085.1_835272_836112_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_3|LR134085.1_836285_836936_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_2|LR134085.1_836932_837169_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_1|LR134085.1_837437_839423_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_0|LR134085.1_839430_842277_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|down_0|LR134085.1_842883_843816_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|down_1|LR134085.1_843821_844661_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|down_2|LR134085.1_844668_845154_+	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|LR134085.1_845161_846601_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|down_4|LR134085.1_846667_847603_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_5|LR134085.1_848482_849394_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_6|LR134085.1_849390_850386_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_7|LR134085.1_850495_851440_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_8|LR134085.1_852012_852600_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|290aa|down_9|LR134085.1_852842_853712_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	5	847965-848050	5	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	6	847995-848020|847995-848020|847995-848020|847995-848020|847995-848020|847995-848020	LR134085.1_811012-810987|LR134085.1_1171773-1171748|LR134085.1_2803554-2803579|LR134085.1_2803610-2803635|LR134085.1_811068-811043|LR134085.1_953541-953516	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|LR134085.1_835272_836112_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|LR134085.1_836285_836936_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|LR134085.1_836932_837169_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|LR134085.1_837437_839423_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|LR134085.1_839430_842277_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|LR134085.1_842883_843816_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|LR134085.1_843821_844661_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|LR134085.1_844668_845154_+	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|LR134085.1_845161_846601_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|LR134085.1_846667_847603_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|LR134085.1_848482_849394_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|LR134085.1_849390_850386_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|LR134085.1_850495_851440_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|LR134085.1_852012_852600_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|290aa|down_4|LR134085.1_852842_853712_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|LR134085.1_854447_855077_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|LR134085.1_855776_856790_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|LR134085.1_856842_857853_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|LR134085.1_857991_859182_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|LR134085.1_859303_860065_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	6	904699-904780	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	904723-904756|904723-904756	LR134085.1_1379915-1379882|LR134085.1_1469067-1469100	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|38aa|up_1|LR134085.1_903601_903715_+,NA	NA|206aa|up_9|LR134085.1_898456_899074_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_8|LR134085.1_899228_899723_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|LR134085.1_900121_900544_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|LR134085.1_900691_901408_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|LR134085.1_901490_902030_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|LR134085.1_902179_902500_-	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_3|LR134085.1_902643_903000_+	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_2|LR134085.1_903157_903538_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|LR134085.1_903601_903715_+	NA	NA|293aa|up_0|LR134085.1_903716_904595_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|130aa|down_0|LR134085.1_905333_905723_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|LR134085.1_905715_906012_+	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|LR134085.1_906261_907287_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|LR134085.1_907279_907975_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|LR134085.1_907992_908814_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|LR134085.1_909167_909362_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|LR134085.1_909594_910446_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|LR134085.1_910773_911535_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|LR134085.1_911632_912940_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|414aa|down_9|LR134085.1_913054_914296_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	7	953542-953880	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	3	10	953572-953597|953572-953597|953628-953653|953628-953653|953628-953653|953628-953653|953628-953653|953742-953767|953742-953767|953742-953767	LR134085.1_953516-953541|LR134085.1_905083-905058|LR134085.1_953516-953541|LR134085.1_810987-811012|LR134085.1_1171748-1171773|LR134085.1_2803579-2803554|LR134085.1_2803635-2803610|LR134085.1_848076-848051|LR134085.1_2003726-2003701|LR134085.1_403257-403282	NA	5	5	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|LR134085.1_942430_943927_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|LR134085.1_943919_944261_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|LR134085.1_944260_944689_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|LR134085.1_944681_947087_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|LR134085.1_947217_947601_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|LR134085.1_947664_948258_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|LR134085.1_948673_949051_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|LR134085.1_949412_950540_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|LR134085.1_950847_952038_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|LR134085.1_952146_953391_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|LR134085.1_953949_954879_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|LR134085.1_955120_956500_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|LR134085.1_956489_957695_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|LR134085.1_958045_959377_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|LR134085.1_959701_960277_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|LR134085.1_960281_960806_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|LR134085.1_960821_961397_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|LR134085.1_961556_965033_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|LR134085.1_965033_968687_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|LR134085.1_968852_969755_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	8	1087271-1087358	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCTAACAACTAAAAGTTGTAAGG	25	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|40aa|up_0|LR134085.1_1087147_1087267_+,NA|45aa|down_0|LR134085.1_1087367_1087502_-,NA|432aa|down_1|LR134085.1_1087653_1088949_+	NA|730aa|up_9|LR134085.1_1075725_1077915_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_8|LR134085.1_1077893_1079378_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_7|LR134085.1_1079370_1080399_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_6|LR134085.1_1080401_1080968_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_5|LR134085.1_1080982_1082461_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_4|LR134085.1_1082482_1083730_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_3|LR134085.1_1083994_1084801_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_2|LR134085.1_1084793_1086194_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_1|LR134085.1_1086208_1086784_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|40aa|up_0|LR134085.1_1087147_1087267_+	NA	NA|45aa|down_0|LR134085.1_1087367_1087502_-	NA	NA|432aa|down_1|LR134085.1_1087653_1088949_+	NA	NA|391aa|down_2|LR134085.1_1089373_1090546_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|LR134085.1_1090599_1091142_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|LR134085.1_1091295_1091562_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|LR134085.1_1091564_1093283_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|LR134085.1_1093519_1093753_-	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|LR134085.1_1093950_1095312_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|LR134085.1_1095308_1096328_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|LR134085.1_1096460_1097123_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	9	1171578-1171764	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGCGGGGCCCCAACATAGA	19	3	27	1171597-1171633|1171597-1171633|1171597-1171633|1171597-1171633|1171597-1171633|1171597-1171633|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171653-1171689|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745|1171709-1171745	LR134085.1_1846993-1847029|LR134085.1_904796-904760|LR134085.1_1661781-1661745|LR134085.1_2014456-2014420|LR134085.1_2554189-2554225|LR134085.1_2803673-2803637|LR134085.1_403274-403310|LR134085.1_848059-848023|LR134085.1_1071019-1070983|LR134085.1_1379841-1379877|LR134085.1_2003709-2003673|LR134085.1_1469141-1469105|LR134085.1_1661839-1661803|LR134085.1_2638253-2638217|LR134085.1_1171765-1171801|LR134085.1_2003650-2003614|LR134085.1_2803618-2803582|LR134085.1_137124-137160|LR134085.1_684270-684306|LR134085.1_800568-800532|LR134085.1_801502-801538|LR134085.1_848115-848079|LR134085.1_1379899-1379935|LR134085.1_1469083-1469047|LR134085.1_2005166-2005130|LR134085.1_1097215-1097179|LR134085.1_2528941-2528905	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|169aa|up_7|LR134085.1_1165470_1165977_+,NA|62aa|up_4|LR134085.1_1167945_1168131_-,NA|78aa|up_3|LR134085.1_1168752_1168986_-,NA|49aa|up_1|LR134085.1_1171094_1171241_+,NA|66aa|up_0|LR134085.1_1171224_1171422_+,NA|76aa|down_6|LR134085.1_1178777_1179005_+	NA|110aa|up_9|LR134085.1_1163699_1164029_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|134aa|up_8|LR134085.1_1164397_1164799_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|LR134085.1_1165470_1165977_+	NA	NA|166aa|up_6|LR134085.1_1166235_1166733_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|LR134085.1_1166886_1167237_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|LR134085.1_1167945_1168131_-	NA	NA|78aa|up_3|LR134085.1_1168752_1168986_-	NA	NA|320aa|up_2|LR134085.1_1169462_1170422_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|LR134085.1_1171094_1171241_+	NA	NA|66aa|up_0|LR134085.1_1171224_1171422_+	NA	NA|239aa|down_0|LR134085.1_1171978_1172695_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|LR134085.1_1172802_1173528_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|LR134085.1_1173622_1174348_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|LR134085.1_1174785_1175787_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|312aa|down_4|LR134085.1_1175806_1176742_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|LR134085.1_1176913_1178470_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|LR134085.1_1178777_1179005_+	NA	NA|316aa|down_7|LR134085.1_1179309_1180257_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|LR134085.1_1180505_1180694_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|LR134085.1_1181605_1181740_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	10	2238602-2238752	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|LR134085.1_2233473_2233704_-,NA|364aa|up_0|LR134085.1_2237492_2238584_+,NA	NA|237aa|up_9|LR134085.1_2229083_2229794_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|LR134085.1_2229914_2230358_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|LR134085.1_2230557_2230971_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|LR134085.1_2231428_2232802_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|LR134085.1_2233473_2233704_-	NA	NA|313aa|up_4|LR134085.1_2233734_2234673_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|LR134085.1_2235107_2235773_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|LR134085.1_2235924_2236245_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|LR134085.1_2236246_2237227_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|LR134085.1_2237492_2238584_+	NA	NA|68aa|down_0|LR134085.1_2239612_2239816_-	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain	NA|379aa|down_1|LR134085.1_2239874_2241011_-	pfam02037, SAP, SAP domain	NA|286aa|down_2|LR134085.1_2242096_2242954_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_3|LR134085.1_2243021_2243804_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_4|LR134085.1_2244035_2245841_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_5|LR134085.1_2246521_2248060_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_6|LR134085.1_2248094_2250227_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_7|LR134085.1_2250238_2250673_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_8|LR134085.1_2250672_2251779_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|2479aa|down_9|LR134085.1_2252097_2259534_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	11	2362766-2362959	3	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	12	2362789-2362821|2362789-2362821|2362789-2362821|2362789-2362821|2362789-2362821|2362845-2362880|2362845-2362880|2362845-2362880|2362904-2362936|2362904-2362936|2362904-2362936|2362904-2362936	LR134085.1_848031-848063|LR134085.1_1379869-1379837|LR134085.1_1469113-1469145|LR134085.1_2003681-2003713|LR134085.1_2638225-2638257|LR134085.1_1847024-1846989|LR134085.1_1661750-1661785|LR134085.1_2014425-2014460|LR134085.1_848031-848063|LR134085.1_1379869-1379837|LR134085.1_2003681-2003713|LR134085.1_2638225-2638257	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_8|LR134085.1_2353293_2353458_+,NA|106aa|up_7|LR134085.1_2353702_2354020_+,NA|84aa|up_4|LR134085.1_2359144_2359396_+,NA	NA|303aa|up_9|LR134085.1_2352252_2353161_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|55aa|up_8|LR134085.1_2353293_2353458_+	NA	NA|106aa|up_7|LR134085.1_2353702_2354020_+	NA	NA|1056aa|up_6|LR134085.1_2354206_2357374_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_5|LR134085.1_2357490_2358756_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_4|LR134085.1_2359144_2359396_+	NA	NA|255aa|up_3|LR134085.1_2359387_2360152_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_2|LR134085.1_2360313_2360754_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_1|LR134085.1_2360746_2361958_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_0|LR134085.1_2362059_2362410_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|341aa|down_0|LR134085.1_2363100_2364123_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|LR134085.1_2364142_2364742_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|LR134085.1_2364748_2364982_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|LR134085.1_2364987_2365434_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|LR134085.1_2365447_2365933_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|LR134085.1_2365929_2367189_-	cd00887, MoeA, MoeA family	NA|169aa|down_6|LR134085.1_2367747_2368254_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_7|LR134085.1_2368284_2369289_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_8|LR134085.1_2369458_2370064_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|224aa|down_9|LR134085.1_2370064_2370736_-	COG4149, ModC, ABC-type molybdate transport system, permease component [Inorganic ion transport and metabolism]
GCA_900635265.1_40574_H02	LR134085	Staphylococcus aureus strain NCTC12233 genome assembly, chromosome: 1	12	2478545-2478632	9	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GCGCATGCATAAAAGCCCCTAACAACC	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|345aa|up_9|LR134085.1_2466632_2467667_-	COG0492, TrxB, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]	NA|144aa|up_8|LR134085.1_2467898_2468330_-	pfam11070, DUF2871, Protein of unknown function (DUF2871)	NA|426aa|up_7|LR134085.1_2468536_2469814_-	COG1511, COG1511, Predicted membrane protein [Function unknown]	NA|208aa|up_6|LR134085.1_2469974_2470598_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|315aa|up_5|LR134085.1_2470643_2471588_+	cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family	NA|481aa|up_4|LR134085.1_2471673_2473116_-	TIGR01996, Includes:_Phosphotransferase_enzyme_IIB_component, PTS system, sucrose-specific IIBC component	NA|128aa|up_3|LR134085.1_2473298_2473682_+	pfam08349, DUF1722, Protein of unknown function (DUF1722)	NA|702aa|up_2|LR134085.1_2475169_2477275_+	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|141aa|up_1|LR134085.1_2477345_2477768_+	COG3871, COG3871, Uncharacterized stress protein (general stress protein 26) [General function prediction only]	NA|119aa|up_0|LR134085.1_2478032_2478389_+	pfam16230, DUF4889, Domain of unknown function (DUF4889)	NA|426aa|down_0|LR134085.1_2478670_2479948_-	PRK11283, gltP, glutamate/aspartate:proton symporter; Provisional	NA|122aa|down_1|LR134085.1_2480129_2480495_-	pfam11337, DUF3139, Protein of unknown function (DUF3139)	NA|149aa|down_2|LR134085.1_2480892_2481339_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|141aa|down_3|LR134085.1_2481560_2481983_+	COG0071, IbpA, Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]	NA|390aa|down_4|LR134085.1_2482089_2483259_-	COG2223, NarK, Nitrate/nitrite transporter [Inorganic ion transport and metabolism]	NA|213aa|down_5|LR134085.1_2483628_2484267_+	COG5504, COG5504, Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]	NA|69aa|down_6|LR134085.1_2484336_2484543_+	COG5504, COG5504, Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]	NA|247aa|down_7|LR134085.1_2484521_2485262_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|218aa|down_8|LR134085.1_2485519_2486173_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|345aa|down_9|LR134085.1_2486195_2487230_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]
