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_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	1	419000-419100	1	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|70aa|up_8|NC_017341.1_410572_410782_-,NA|128aa|up_6|NC_017341.1_411606_411990_-,NA|34aa|up_0|NC_017341.1_418224_418326_+,NA|221aa|down_1|NC_017341.1_420190_420853_-	NA|84aa|up_9|NC_017341.1_410282_410534_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NC_017341.1_410572_410782_-	NA	NA|194aa|up_7|NC_017341.1_410959_411541_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NC_017341.1_411606_411990_-	NA	NA|209aa|up_5|NC_017341.1_412244_412871_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NC_017341.1_413315_414839_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NC_017341.1_414854_415424_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NC_017341.1_415915_416671_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NC_017341.1_416751_418140_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NC_017341.1_418224_418326_+	NA	NA|319aa|down_0|NC_017341.1_419116_420073_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NC_017341.1_420190_420853_-	NA	NA|136aa|down_2|NC_017341.1_420995_421403_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NC_017341.1_421915_422494_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NC_017341.1_422493_423762_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NC_017341.1_423799_425266_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NC_017341.1_425290_426832_+	PRK00074, guaA, GMP synthase; Reviewed	NA|398aa|down_7|NC_017341.1_426899_428093_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|67aa|down_8|NC_017341.1_428119_428320_-	pfam11372, DUF3173, Domain of unknown function (DUF3173)	NA|77aa|down_9|NC_017341.1_428817_429048_-	pfam12645, HTH_16, Helix-turn-helix domain
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	2	686715-686807	2	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|36aa|up_3|NC_017341.1_683198_683306_+,NA|169aa|down_4|NC_017341.1_690554_691061_+,NA|239aa|down_5|NC_017341.1_691222_691939_+	NA|313aa|up_9|NC_017341.1_677400_678339_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NC_017341.1_678549_679086_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NC_017341.1_679254_679731_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NC_017341.1_679770_681066_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NC_017341.1_681093_681615_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NC_017341.1_682113_683124_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NC_017341.1_683198_683306_+	NA	NA|139aa|up_2|NC_017341.1_683398_683815_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NC_017341.1_683811_685473_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NC_017341.1_685861_686497_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NC_017341.1_686875_687763_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NC_017341.1_687910_688861_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NC_017341.1_688915_689635_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NC_017341.1_689618_690419_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NC_017341.1_690554_691061_+	NA	NA|239aa|down_5|NC_017341.1_691222_691939_+	NA	NA|263aa|down_6|NC_017341.1_692107_692896_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NC_017341.1_693146_693521_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NC_017341.1_694468_695398_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NC_017341.1_695592_695817_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	3	802460-802542	3	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|69aa|up_9|NC_017341.1_789060_789267_+,NA|34aa|down_1|NC_017341.1_803998_804100_+,NA|52aa|down_8|NC_017341.1_812321_812477_+	NA|69aa|up_9|NC_017341.1_789060_789267_+	NA	NA|237aa|up_8|NC_017341.1_789354_790065_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NC_017341.1_790048_791053_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NC_017341.1_791526_793467_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NC_017341.1_793737_795621_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NC_017341.1_795632_797414_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NC_017341.1_797635_798613_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NC_017341.1_798605_800120_+	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_017341.1_800359_801418_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NC_017341.1_801768_802311_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NC_017341.1_802990_803908_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NC_017341.1_803998_804100_+	NA	NA|502aa|down_2|NC_017341.1_804177_805683_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_3|NC_017341.1_806023_806524_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_4|NC_017341.1_806543_807410_-	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_017341.1_808210_808609_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_6|NC_017341.1_808571_810677_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_7|NC_017341.1_810794_811766_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|52aa|down_8|NC_017341.1_812321_812477_+	NA	NA|324aa|down_9|NC_017341.1_812515_813487_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	4	850339-850424	4	CRISPRCasFinder	no	cas3	csa3,cas3,DEDDh,DinG,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	3	850369-850394|850369-850394|850369-850394	NC_017341.1_287072-287047|NC_017341.1_812055-812030|NC_017341.1_964336-964311	NA	1	1	Unclear	csa3,cas3,DEDDh,DinG,WYL	NA,NA	NA|280aa|up_9|NC_017341.1_837591_838431_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NC_017341.1_838604_839255_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NC_017341.1_839251_839488_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NC_017341.1_839756_841742_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NC_017341.1_841749_844596_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NC_017341.1_845257_846190_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NC_017341.1_846195_847035_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NC_017341.1_847042_847528_+	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_017341.1_847535_848975_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NC_017341.1_849041_849977_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NC_017341.1_850798_851710_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NC_017341.1_851706_852702_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NC_017341.1_852811_853756_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NC_017341.1_854328_854916_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NC_017341.1_855158_856061_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NC_017341.1_856763_857393_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NC_017341.1_858035_859049_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NC_017341.1_859101_860112_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NC_017341.1_860250_861441_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NC_017341.1_861562_862324_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	5	900179-900260	5	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	900203-900236|900203-900236	NC_017341.1_1395572-1395539|NC_017341.1_1487388-1487421	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|126aa|up_4|NC_017341.1_896212_896590_+,NA	NA|107aa|up_9|NC_017341.1_890972_891293_-	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|119aa|up_8|NC_017341.1_891436_891793_+	cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC	NA|127aa|up_7|NC_017341.1_891950_892331_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|362aa|up_6|NC_017341.1_893231_894317_+	cd01186, INT_tnpA_C_Tn554, Putative Transposase A from transposon Tn554, C-terminal catalytic domain	NA|631aa|up_5|NC_017341.1_894313_896206_+	cd01187, INT_tnpB_C_Tn554, Putative Transposase B from transposon Tn554, C-terminal catalytic domain	NA|126aa|up_4|NC_017341.1_896212_896590_+	NA	NA|261aa|up_3|NC_017341.1_896740_897523_+	PRK13746, PRK13746, aminoglycoside resistance protein; Provisional	NA|244aa|up_2|NC_017341.1_897648_898380_-	pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase	NA|20aa|up_1|NC_017341.1_898437_898497_-	pfam08253, Leader_Erm, Erm Leader peptide	NA|221aa|up_0|NC_017341.1_898888_899551_+	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|129aa|down_0|NC_017341.1_900816_901203_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NC_017341.1_901195_901492_+	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_017341.1_901741_902767_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NC_017341.1_902759_903455_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NC_017341.1_903472_904294_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|NC_017341.1_904437_905658_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|NC_017341.1_905745_906474_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|243aa|down_7|NC_017341.1_906497_907226_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|245aa|down_8|NC_017341.1_907400_908135_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|71aa|down_9|NC_017341.1_908284_908497_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	6	1100626-1100713	6	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	CCCCTAACAACTAAAAGTTGTAAGG	25	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA,NA|45aa|down_0|NC_017341.1_1100722_1100857_-,NA|432aa|down_1|NC_017341.1_1101008_1102304_+	NA|224aa|up_9|NC_017341.1_1088416_1089088_+	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ	NA|730aa|up_8|NC_017341.1_1089080_1091270_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_7|NC_017341.1_1091248_1092733_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_6|NC_017341.1_1092725_1093754_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_5|NC_017341.1_1093756_1094323_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_4|NC_017341.1_1094337_1095816_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_3|NC_017341.1_1095837_1097085_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_2|NC_017341.1_1097349_1098156_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_1|NC_017341.1_1098148_1099549_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_0|NC_017341.1_1099563_1100139_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|45aa|down_0|NC_017341.1_1100722_1100857_-	NA	NA|432aa|down_1|NC_017341.1_1101008_1102304_+	NA	NA|391aa|down_2|NC_017341.1_1102728_1103901_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|NC_017341.1_1103954_1104497_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|NC_017341.1_1104650_1104917_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|NC_017341.1_1104919_1106638_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|NC_017341.1_1106874_1107108_-	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_017341.1_1107305_1108667_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|NC_017341.1_1108663_1109683_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|NC_017341.1_1109815_1110478_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	7	1184915-1185000	7	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	AAAGTCAGCTTACAATAATGTGCAAGTTGG	30	1	3	1184945-1184970|1184945-1184970|1184945-1184970	NC_017341.1_287047-287072|NC_017341.1_812030-812055|NC_017341.1_812086-812111	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|31aa|up_9|NC_017341.1_1177711_1177804_-,NA|169aa|up_7|NC_017341.1_1178836_1179343_+,NA|62aa|up_4|NC_017341.1_1181198_1181384_-,NA|78aa|up_3|NC_017341.1_1182005_1182239_-,NA|49aa|up_1|NC_017341.1_1184347_1184494_+,NA|75aa|up_0|NC_017341.1_1184450_1184675_+,NA|76aa|down_6|NC_017341.1_1191974_1192202_+	NA|31aa|up_9|NC_017341.1_1177711_1177804_-	NA	NA|134aa|up_8|NC_017341.1_1177763_1178165_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|NC_017341.1_1178836_1179343_+	NA	NA|166aa|up_6|NC_017341.1_1179601_1180099_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|NC_017341.1_1180252_1180603_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|NC_017341.1_1181198_1181384_-	NA	NA|78aa|up_3|NC_017341.1_1182005_1182239_-	NA	NA|320aa|up_2|NC_017341.1_1182715_1183675_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|NC_017341.1_1184347_1184494_+	NA	NA|75aa|up_0|NC_017341.1_1184450_1184675_+	NA	NA|239aa|down_0|NC_017341.1_1185175_1185892_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|NC_017341.1_1185999_1186725_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|NC_017341.1_1186819_1187545_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|NC_017341.1_1187982_1188984_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|311aa|down_4|NC_017341.1_1189006_1189939_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|NC_017341.1_1190110_1191667_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|NC_017341.1_1191974_1192202_+	NA	NA|316aa|down_7|NC_017341.1_1192506_1193454_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|NC_017341.1_1193702_1193891_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|NC_017341.1_1194802_1194937_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	8	1954012-1954139	8	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	AATTATGGAGCGGAAGATAGGATTTACACCTATACCTC	38	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|132aa|up_9|NC_017341.1_1944596_1944992_-,NA|51aa|up_8|NC_017341.1_1945768_1945921_-,NA|38aa|up_0|NC_017341.1_1953777_1953891_+,NA|31aa|down_5|NC_017341.1_1967017_1967110_-	NA|132aa|up_9|NC_017341.1_1944596_1944992_-	NA	NA|51aa|up_8|NC_017341.1_1945768_1945921_-	NA	NA|200aa|up_7|NC_017341.1_1945945_1946545_-	COG0363, NagB, 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]	NA|157aa|up_6|NC_017341.1_1946703_1947174_-	COG0219, CspR, Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_5|NC_017341.1_1947178_1948306_-	TIGR00276, iron-sulfur_cluster-binding_protein, epoxyqueuosine reductase	NA|241aa|up_4|NC_017341.1_1948456_1949179_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|486aa|up_3|NC_017341.1_1949171_1950629_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|354aa|up_2|NC_017341.1_1950886_1951948_-	COG3641, PfoR, Predicted membrane protein, putative toxin regulator [General function prediction only]	NA|454aa|up_1|NC_017341.1_1952440_1953802_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|38aa|up_0|NC_017341.1_1953777_1953891_+	NA	NA|149aa|down_0|NC_017341.1_1962216_1962663_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|317aa|down_1|NC_017341.1_1962759_1963710_-	cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family	NA|152aa|down_2|NC_017341.1_1963715_1964171_-	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|430aa|down_3|NC_017341.1_1964251_1965541_+	PRK12389, PRK12389, glutamate-1-semialdehyde aminotransferase; Provisional	NA|365aa|down_4|NC_017341.1_1965833_1966928_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|31aa|down_5|NC_017341.1_1967017_1967110_-	NA	NA|579aa|down_6|NC_017341.1_1967118_1968855_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|181aa|down_7|NC_017341.1_1969145_1969688_-	PRK13662, PRK13662, hypothetical protein; Provisional	NA|346aa|down_8|NC_017341.1_1969989_1971027_-	COG1194, MutY, A/G-specific DNA glycosylase [DNA replication, recombination, and repair]	NA|326aa|down_9|NC_017341.1_1971178_1972156_+	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	9	2295085-2295235	9	CRISPRCasFinder	no	csa3	csa3,cas3,DEDDh,DinG,WYL	Type I-A	AACTTTAGTTGTTAGGGGCTCTTATGCA	28	0	0	NA	NA	NA	2	2	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|77aa|up_5|NC_017341.1_2289956_2290187_-,NA|364aa|up_0|NC_017341.1_2293975_2295067_+,NA|35aa|down_0|NC_017341.1_2295566_2295671_-,NA|31aa|down_2|NC_017341.1_2297782_2297875_+	NA|237aa|up_9|NC_017341.1_2285566_2286277_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NC_017341.1_2286397_2286841_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NC_017341.1_2287040_2287454_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NC_017341.1_2287911_2289285_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NC_017341.1_2289956_2290187_-	NA	NA|313aa|up_4|NC_017341.1_2290217_2291156_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NC_017341.1_2291590_2292256_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NC_017341.1_2292407_2292728_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NC_017341.1_2292729_2293710_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NC_017341.1_2293975_2295067_+	NA	NA|35aa|down_0|NC_017341.1_2295566_2295671_-	NA	NA|379aa|down_1|NC_017341.1_2296357_2297494_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NC_017341.1_2297782_2297875_+	NA	NA|286aa|down_3|NC_017341.1_2298579_2299437_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NC_017341.1_2299504_2300287_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NC_017341.1_2300518_2302324_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NC_017341.1_2303004_2304543_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NC_017341.1_2304577_2306710_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NC_017341.1_2306721_2307156_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NC_017341.1_2307155_2308262_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	10	2322304-2322431	10	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	AATTATGGAGCGGAAGATAGGATTTACACCTATACCTC	38	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|38aa|up_0|NC_017341.1_2322069_2322183_+,NA|62aa|down_0|NC_017341.1_2329951_2330137_-,NA|87aa|down_8|NC_017341.1_2337918_2338179_+	NA|602aa|up_9|NC_017341.1_2300518_2302324_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|up_8|NC_017341.1_2303004_2304543_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|up_7|NC_017341.1_2304577_2306710_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|up_6|NC_017341.1_2306721_2307156_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|up_5|NC_017341.1_2307155_2308262_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|452aa|up_4|NC_017341.1_2316295_2317651_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|311aa|up_3|NC_017341.1_2317677_2318610_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|270aa|up_2|NC_017341.1_2318611_2319421_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|303aa|up_1|NC_017341.1_2319609_2320518_-	cd09989, Arginase, Arginase family	NA|38aa|up_0|NC_017341.1_2322069_2322183_+	NA	NA|62aa|down_0|NC_017341.1_2329951_2330137_-	NA	NA|355aa|down_1|NC_017341.1_2330225_2331290_-	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|481aa|down_2|NC_017341.1_2331437_2332880_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|158aa|down_3|NC_017341.1_2333201_2333675_-	pfam17080, SepA, Multidrug Resistance efflux pump	NA|448aa|down_4|NC_017341.1_2333773_2335117_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|228aa|down_5|NC_017341.1_2335293_2335977_-	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|396aa|down_6|NC_017341.1_2335995_2337183_-	cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc	NA|172aa|down_7|NC_017341.1_2337226_2337742_-	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|87aa|down_8|NC_017341.1_2337918_2338179_+	NA	NA|457aa|down_9|NC_017341.1_2338310_2339681_-	COG3314, COG3314, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	11	2421118-2421311	1	CRT	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	14	2421141-2421173|2421141-2421173|2421141-2421173|2421141-2421173|2421141-2421173|2421197-2421232|2421197-2421232|2421197-2421232|2421197-2421232|2421197-2421232|2421256-2421288|2421256-2421288|2421256-2421288|2421256-2421288	NC_017341.1_1184934-1184902|NC_017341.1_1395526-1395494|NC_017341.1_1487434-1487466|NC_017341.1_2031594-2031626|NC_017341.1_2695148-2695180|NC_017341.1_1184881-1184846|NC_017341.1_1853686-1853651|NC_017341.1_287207-287172|NC_017341.1_1666491-1666526|NC_017341.1_2042338-2042373|NC_017341.1_1184934-1184902|NC_017341.1_1395526-1395494|NC_017341.1_2031594-2031626|NC_017341.1_2695148-2695180	NA	3	3	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|55aa|up_9|NC_017341.1_2411645_2411810_+,NA|106aa|up_8|NC_017341.1_2412054_2412372_+,NA|84aa|up_5|NC_017341.1_2417496_2417748_+,NA|57aa|up_0|NC_017341.1_2420887_2421058_+,NA	NA|55aa|up_9|NC_017341.1_2411645_2411810_+	NA	NA|106aa|up_8|NC_017341.1_2412054_2412372_+	NA	NA|1056aa|up_7|NC_017341.1_2412558_2415726_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NC_017341.1_2415842_2417108_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NC_017341.1_2417496_2417748_+	NA	NA|255aa|up_4|NC_017341.1_2417739_2418504_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NC_017341.1_2418665_2419106_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NC_017341.1_2419098_2420310_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NC_017341.1_2420411_2420762_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NC_017341.1_2420887_2421058_+	NA	NA|341aa|down_0|NC_017341.1_2421452_2422475_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NC_017341.1_2422494_2423094_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NC_017341.1_2423100_2423334_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NC_017341.1_2423339_2423786_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NC_017341.1_2423799_2424285_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NC_017341.1_2424281_2425541_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NC_017341.1_2425603_2426098_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NC_017341.1_2426099_2426606_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NC_017341.1_2426636_2427641_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NC_017341.1_2427810_2428416_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
GCF_000145595.1_ASM14559v1	NC_017341	Staphylococcus aureus subsp. aureus str. JKD6008, complete sequence	12	2917634-2917717	11	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,WYL	Orphan	TTTCGAAATTCTCTGTGTTGGGACCC	26	1	3	2917660-2917691|2917660-2917691|2917660-2917691	NC_017341.1_850505-850536|NC_017341.1_1110586-1110617|NC_017341.1_1487478-1487509	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,WYL	NA|64aa|up_7|NC_017341.1_2911585_2911777_+,NA|166aa|up_6|NC_017341.1_2912863_2913361_-,NA	NA|253aa|up_9|NC_017341.1_2908865_2909624_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|627aa|up_8|NC_017341.1_2909613_2911494_+	pfam02687, FtsX, FtsX-like permease family	NA|64aa|up_7|NC_017341.1_2911585_2911777_+	NA	NA|166aa|up_6|NC_017341.1_2912863_2913361_-	NA	NA|250aa|up_5|NC_017341.1_2913362_2914112_-	pfam15526, Ntox21, Novel toxin 21	NA|268aa|up_4|NC_017341.1_2914130_2914934_-	cd07477, Peptidases_S8_Subtilisin_subset, Peptidase S8 family domain in Subtilisin proteins	NA|67aa|up_3|NC_017341.1_2915417_2915618_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|190aa|up_2|NC_017341.1_2915744_2916314_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|132aa|up_1|NC_017341.1_2916566_2916962_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|118aa|up_0|NC_017341.1_2917029_2917383_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|280aa|down_0|NC_017341.1_2917935_2918775_-	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|240aa|down_1|NC_017341.1_2918817_2919537_-	PRK00107, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA|626aa|down_2|NC_017341.1_2919536_2921414_-	PRK05192, PRK05192, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	NA|460aa|down_3|NC_017341.1_2921480_2922860_-	PRK05291, trmE, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE	NA|118aa|down_4|NC_017341.1_2923003_2923357_-	PRK00499, rnpA, ribonuclease P; Reviewed	NA|46aa|down_5|NC_017341.1_2923476_2923614_-	pfam00468, Ribosomal_L34, Ribosomal protein L34	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA
