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_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	1	404267-404351	1	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	TTCTACAGGCAATGCAAGTTGGGGTG	26	1	2	404293-404325|404293-404325	NZ_CP047861.1_674299-674267|NZ_CP047861.1_1279087-1279119	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA	NA|190aa|up_9|NZ_CP047861.1_394896_395466_+	TIGR00482, Probable_nicotinate-nucleotide_adenylyltransferase, nicotinate (nicotinamide) nucleotide adenylyltransferase	NA|195aa|up_8|NZ_CP047861.1_395455_396040_+	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|118aa|up_7|NZ_CP047861.1_396040_396394_+	COG0799, COG0799, Uncharacterized homolog of plant Iojap protein [Function unknown]	NA|239aa|up_6|NZ_CP047861.1_396396_397113_+	pfam13649, Methyltransf_25, Methyltransferase domain	NA|229aa|up_5|NZ_CP047861.1_397152_397839_+	COG1555, ComEA, DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]	NA|154aa|up_4|NZ_CP047861.1_397930_398392_+	TIGR02571, putative_dCMP_deaminase, ComE operon protein 2	NA|716aa|up_3|NZ_CP047861.1_398450_400598_+	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|325aa|up_2|NZ_CP047861.1_400654_401629_+	PRK05574, holA, DNA polymerase III subunit delta; Reviewed	NA|84aa|up_1|NZ_CP047861.1_401673_401925_-	PRK00239, rpsT, 30S ribosomal protein S20; Reviewed	NA|608aa|up_0|NZ_CP047861.1_402270_404094_+	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|375aa|down_0|NZ_CP047861.1_404659_405784_+	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|326aa|down_1|NZ_CP047861.1_405884_406862_+	TIGR00331, Heat-inducible_transcription_repressor_HrcA, heat shock gene repressor HrcA	NA|209aa|down_2|NZ_CP047861.1_406893_407520_+	PRK14140, PRK14140, heat shock protein GrpE; Provisional	NA|611aa|down_3|NZ_CP047861.1_407588_409421_+	PRK00290, dnaK, molecular chaperone DnaK; Provisional	NA|380aa|down_4|NZ_CP047861.1_409556_410696_+	PRK14280, PRK14280, molecular chaperone DnaJ	NA|313aa|down_5|NZ_CP047861.1_410699_411638_+	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	NA|251aa|down_6|NZ_CP047861.1_411639_412392_+	COG1385, COG1385, Uncharacterized protein conserved in bacteria [Function unknown]	NA|449aa|down_7|NZ_CP047861.1_412398_413745_+	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|59aa|down_8|NZ_CP047861.1_414037_414214_+	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|228aa|down_9|NZ_CP047861.1_414457_415141_+	COG1030, NfeD, Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	2	1235857-1235938	2	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	TTCTACAGGCAATGCAAGTTGGGG	24	1	1	1235881-1235914	NZ_CP047861.1_674300-674267	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|38aa|down_1|NZ_CP047861.1_1236921_1237035_-	NA|414aa|up_9|NZ_CP047861.1_1226284_1227526_-	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|436aa|up_8|NZ_CP047861.1_1227640_1228948_-	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|254aa|up_7|NZ_CP047861.1_1229045_1229807_-	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|284aa|up_6|NZ_CP047861.1_1230134_1230986_+	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|65aa|up_5|NZ_CP047861.1_1231219_1231414_-	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|274aa|up_4|NZ_CP047861.1_1231767_1232589_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|232aa|up_3|NZ_CP047861.1_1232606_1233302_-	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|342aa|up_2|NZ_CP047861.1_1233294_1234320_-	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|99aa|up_1|NZ_CP047861.1_1234569_1234866_-	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|129aa|up_0|NZ_CP047861.1_1234858_1235245_-	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|293aa|down_0|NZ_CP047861.1_1236041_1236920_-	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|38aa|down_1|NZ_CP047861.1_1236921_1237035_-	NA	NA|127aa|down_2|NZ_CP047861.1_1237098_1237479_-	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|119aa|down_3|NZ_CP047861.1_1237636_1237993_-	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|107aa|down_4|NZ_CP047861.1_1238136_1238457_+	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|180aa|down_5|NZ_CP047861.1_1238607_1239147_-	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|239aa|down_6|NZ_CP047861.1_1239229_1239946_-	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|141aa|down_7|NZ_CP047861.1_1240093_1240516_+	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|165aa|down_8|NZ_CP047861.1_1240914_1241409_+	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|206aa|down_9|NZ_CP047861.1_1241563_1242181_+	COG1279, COG1279, Lysine efflux permease [General function prediction only]
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	3	1284599-1284677	3	CRISPRCasFinder	no	cas3	DEDDh,csa3,cas3,DinG,WYL,RT	Unclear	AGAATTTCGAAAAGAAATTCTACA	24	1	3	1284623-1284653|1284623-1284653|1284623-1284653	NZ_CP047861.1_1796162-1796132|NZ_CP047861.1_369840-369870|NZ_CP047861.1_1796217-1796187	NA	1	1	Unclear	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|36aa|down_5|NZ_CP047861.1_1292155_1292263_-,NA|35aa|down_7|NZ_CP047861.1_1293695_1293800_-	NA|301aa|up_9|NZ_CP047861.1_1273480_1274383_+	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|196aa|up_8|NZ_CP047861.1_1274625_1275213_-	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|315aa|up_7|NZ_CP047861.1_1275776_1276721_-	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|332aa|up_6|NZ_CP047861.1_1276831_1277827_-	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|304aa|up_5|NZ_CP047861.1_1277823_1278735_-	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|312aa|up_4|NZ_CP047861.1_1279620_1280556_-	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|480aa|up_3|NZ_CP047861.1_1280622_1282062_-	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|162aa|up_2|NZ_CP047861.1_1282069_1282555_-	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|280aa|up_1|NZ_CP047861.1_1282562_1283402_-	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|311aa|up_0|NZ_CP047861.1_1283407_1284340_-	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|949aa|down_0|NZ_CP047861.1_1285003_1287850_-	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|662aa|down_1|NZ_CP047861.1_1287857_1289843_-	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|79aa|down_2|NZ_CP047861.1_1290111_1290348_-	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|217aa|down_3|NZ_CP047861.1_1290344_1290995_-	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|280aa|down_4|NZ_CP047861.1_1291168_1292008_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|36aa|down_5|NZ_CP047861.1_1292155_1292263_-	NA	NA|370aa|down_6|NZ_CP047861.1_1292416_1293527_-	PRK00578, prfB, peptide chain release factor 2; Validated	NA|35aa|down_7|NZ_CP047861.1_1293695_1293800_-	NA	NA|844aa|down_8|NZ_CP047861.1_1293841_1296373_-	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|191aa|down_9|NZ_CP047861.1_1296786_1297359_-	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	4	1680988-1681090	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	CAAATTTAATACTCAATTCATATA	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA|179aa|up_7|NZ_CP047861.1_1672606_1673143_+,NA|221aa|up_1|NZ_CP047861.1_1679234_1679897_+,NA|33aa|down_0|NZ_CP047861.1_1681765_1681864_-,NA|128aa|down_6|NZ_CP047861.1_1688111_1688495_+,NA|70aa|down_8|NZ_CP047861.1_1689319_1689529_+	NA|91aa|up_9|NZ_CP047861.1_1670839_1671112_+	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|235aa|up_8|NZ_CP047861.1_1671510_1672215_+	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|179aa|up_7|NZ_CP047861.1_1672606_1673143_+	NA	NA|514aa|up_6|NZ_CP047861.1_1673255_1674797_-	PRK00074, guaA, GMP synthase; Reviewed	NA|489aa|up_5|NZ_CP047861.1_1674821_1676288_-	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|423aa|up_4|NZ_CP047861.1_1676325_1677594_-	TIGR03173, pbuX, xanthine permease	NA|193aa|up_3|NZ_CP047861.1_1677593_1678172_-	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|136aa|up_2|NZ_CP047861.1_1678684_1679092_+	pfam11181, YflT, Heat induced stress protein YflT	NA|221aa|up_1|NZ_CP047861.1_1679234_1679897_+	NA	NA|319aa|up_0|NZ_CP047861.1_1680014_1680971_+	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|33aa|down_0|NZ_CP047861.1_1681765_1681864_-	NA	NA|463aa|down_1|NZ_CP047861.1_1681948_1683337_+	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|252aa|down_2|NZ_CP047861.1_1683416_1684172_-	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|190aa|down_3|NZ_CP047861.1_1684663_1685233_+	TIGR03137, AhpC, peroxiredoxin	NA|508aa|down_4|NZ_CP047861.1_1685248_1686772_+	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|209aa|down_5|NZ_CP047861.1_1687215_1687842_+	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|128aa|down_6|NZ_CP047861.1_1688111_1688495_+	NA	NA|194aa|down_7|NZ_CP047861.1_1688560_1689142_-	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|70aa|down_8|NZ_CP047861.1_1689319_1689529_+	NA	NA|84aa|down_9|NZ_CP047861.1_1689567_1689819_-	COG2261, COG2261, Predicted membrane protein [Function unknown]
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	5	2339166-2339299	1	PILER-CR	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	TATTGAAGAAGATACAA	17	2	2	2339183-2339228|2339246-2339282	NZ_CP047861.1_2335659-2335704|NZ_CP047861.1_2335722-2335758	NA	2	2	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|78aa|down_5|NZ_CP047861.1_2347616_2347850_+,NA|103aa|down_6|NZ_CP047861.1_2347957_2348266_-,NA|89aa|down_7|NZ_CP047861.1_2348409_2348676_-	NA|204aa|up_9|NZ_CP047861.1_2321674_2322286_-	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|426aa|up_8|NZ_CP047861.1_2322832_2324110_+	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|608aa|up_7|NZ_CP047861.1_2324586_2326410_+	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|139aa|up_6|NZ_CP047861.1_2326548_2326965_+	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|231aa|up_5|NZ_CP047861.1_2327195_2327888_+	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|255aa|up_4|NZ_CP047861.1_2328052_2328817_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|227aa|up_3|NZ_CP047861.1_2328969_2329650_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|518aa|up_2|NZ_CP047861.1_2329673_2331227_+	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|453aa|up_1|NZ_CP047861.1_2331343_2332702_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|997aa|up_0|NZ_CP047861.1_2333170_2336161_+	pfam10425, SdrG_C_C, C-terminus of bacterial fibrinogen-binding adhesin	NA|289aa|down_0|NZ_CP047861.1_2339907_2340774_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|248aa|down_1|NZ_CP047861.1_2340984_2341728_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|119aa|down_2|NZ_CP047861.1_2342051_2342408_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|1116aa|down_3|NZ_CP047861.1_2342712_2346060_+	pfam18483, Bact_lectin, Bacterial lectin	NA|359aa|down_4|NZ_CP047861.1_2346443_2347520_+	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters	NA|78aa|down_5|NZ_CP047861.1_2347616_2347850_+	NA	NA|103aa|down_6|NZ_CP047861.1_2347957_2348266_-	NA	NA|89aa|down_7|NZ_CP047861.1_2348409_2348676_-	NA	NA|603aa|down_8|NZ_CP047861.1_2348959_2350768_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|131aa|down_9|NZ_CP047861.1_2350899_2351292_+	cd03425, MutT_pyrophosphohydrolase, The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic pyrophosphate (PPi)
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	6	2414713-2414791	5	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	TGCAAGTTGGCGGGGCCCCAACA	23	1	5	2414736-2414768|2414736-2414768|2414736-2414768|2414736-2414768|2414736-2414768	NZ_CP047861.1_1235568-1235600|NZ_CP047861.1_1271789-1271821|NZ_CP047861.1_2806626-2806594|NZ_CP047861.1_1271844-1271876|NZ_CP047861.1_1271900-1271932	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA|220aa|up_3|NZ_CP047861.1_2411637_2412297_-,NA|36aa|up_0|NZ_CP047861.1_2414286_2414394_+,NA	NA|693aa|up_9|NZ_CP047861.1_2404099_2406178_-	COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]	NA|470aa|up_8|NZ_CP047861.1_2406315_2407725_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|269aa|up_7|NZ_CP047861.1_2408010_2408817_+	TIGR03729, acc_ester, putative phosphoesterase	NA|219aa|up_6|NZ_CP047861.1_2408879_2409536_-	COG4990, COG4990, Uncharacterized protein conserved in bacteria [Function unknown]	NA|158aa|up_5|NZ_CP047861.1_2409648_2410122_+	COG3708, COG3708, Uncharacterized protein conserved in bacteria [Function unknown]	NA|404aa|up_4|NZ_CP047861.1_2410244_2411456_-	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|220aa|up_3|NZ_CP047861.1_2411637_2412297_-	NA	NA|381aa|up_2|NZ_CP047861.1_2412356_2413499_-	TIGR00045, Glycerate_kinase, glycerate kinase	NA|129aa|up_1|NZ_CP047861.1_2413766_2414153_+	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|36aa|up_0|NZ_CP047861.1_2414286_2414394_+	NA	NA|588aa|down_0|NZ_CP047861.1_2415096_2416860_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|578aa|down_1|NZ_CP047861.1_2416884_2418618_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|229aa|down_2|NZ_CP047861.1_2419070_2419757_+	COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism]	NA|453aa|down_3|NZ_CP047861.1_2419734_2421093_+	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase	NA|336aa|down_4|NZ_CP047861.1_2421094_2422102_+	PRK06256, PRK06256, biotin synthase; Validated	NA|372aa|down_5|NZ_CP047861.1_2422079_2423195_+	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|231aa|down_6|NZ_CP047861.1_2423205_2423898_+	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|156aa|down_7|NZ_CP047861.1_2423908_2424376_+	pfam06177, QueT, QueT transporter	NA|326aa|down_8|NZ_CP047861.1_2424427_2425405_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|316aa|down_9|NZ_CP047861.1_2425406_2426354_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	7	2579500-2579580	6	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG,WYL,RT	Orphan	CAAGTTGGCGGGGCCCCAACACAGA	25	1	15	2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555|2579525-2579555	NZ_CP047861.1_1271848-1271878|NZ_CP047861.1_1271904-1271934|NZ_CP047861.1_389687-389657|NZ_CP047861.1_674341-674311|NZ_CP047861.1_880442-880412|NZ_CP047861.1_1452556-1452526|NZ_CP047861.1_1719827-1719797|NZ_CP047861.1_80559-80589|NZ_CP047861.1_585763-585793|NZ_CP047861.1_585879-585909|NZ_CP047861.1_1025577-1025607|NZ_CP047861.1_1235572-1235602|NZ_CP047861.1_1271793-1271823|NZ_CP047861.1_2017939-2017969|NZ_CP047861.1_2590326-2590356	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|62aa|down_0|NZ_CP047861.1_2579621_2579807_-,NA|84aa|down_5|NZ_CP047861.1_2582946_2583198_-,NA|106aa|down_8|NZ_CP047861.1_2588319_2588637_-,NA|55aa|down_9|NZ_CP047861.1_2588881_2589046_-	NA|202aa|up_9|NZ_CP047861.1_2572392_2572998_+	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|335aa|up_8|NZ_CP047861.1_2573167_2574172_+	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|169aa|up_7|NZ_CP047861.1_2574202_2574709_+	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|165aa|up_6|NZ_CP047861.1_2574710_2575205_-	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|420aa|up_5|NZ_CP047861.1_2575267_2576527_+	cd00887, MoeA, MoeA family	NA|162aa|up_4|NZ_CP047861.1_2576523_2577009_+	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|149aa|up_3|NZ_CP047861.1_2577022_2577469_+	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|78aa|up_2|NZ_CP047861.1_2577474_2577708_+	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|200aa|up_1|NZ_CP047861.1_2577714_2578314_+	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|341aa|up_0|NZ_CP047861.1_2578333_2579356_+	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|62aa|down_0|NZ_CP047861.1_2579621_2579807_-	NA	NA|117aa|down_1|NZ_CP047861.1_2579932_2580283_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|404aa|down_2|NZ_CP047861.1_2580384_2581596_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|147aa|down_3|NZ_CP047861.1_2581588_2582029_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|255aa|down_4|NZ_CP047861.1_2582190_2582955_+	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|84aa|down_5|NZ_CP047861.1_2582946_2583198_-	NA	NA|422aa|down_6|NZ_CP047861.1_2583586_2584852_+	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|1056aa|down_7|NZ_CP047861.1_2584968_2588136_+	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|106aa|down_8|NZ_CP047861.1_2588319_2588637_-	NA	NA|55aa|down_9|NZ_CP047861.1_2588881_2589046_-	NA
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	8	2689052-2689137	7	CRISPRCasFinder	no	csa3	DEDDh,csa3,cas3,DinG,WYL,RT	Type I-A	ACTAATGATACGCAAAAATCAGTTGG	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|53aa|down_7|NZ_CP047861.1_2700099_2700258_-,NA|35aa|down_9|NZ_CP047861.1_2700937_2701042_+	NA|228aa|up_9|NZ_CP047861.1_2663982_2664666_+	COG1272, COG1272, Predicted membrane protein, hemolysin III homolog [General function prediction only]	NA|448aa|up_8|NZ_CP047861.1_2664842_2666186_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|158aa|up_7|NZ_CP047861.1_2666284_2666758_+	pfam17080, SepA, Multidrug Resistance efflux pump	NA|481aa|up_6|NZ_CP047861.1_2667080_2668523_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|355aa|up_5|NZ_CP047861.1_2668670_2669735_+	pfam10609, ParA, NUBPL iron-transfer P-loop NTPase	NA|440aa|up_4|NZ_CP047861.1_2676025_2677345_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|303aa|up_3|NZ_CP047861.1_2677495_2678404_+	cd09989, Arginase, Arginase family	NA|270aa|up_2|NZ_CP047861.1_2678592_2679402_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|311aa|up_1|NZ_CP047861.1_2679403_2680336_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|452aa|up_0|NZ_CP047861.1_2680362_2681718_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|369aa|down_0|NZ_CP047861.1_2689759_2690866_-	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|145aa|down_1|NZ_CP047861.1_2690865_2691300_-	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|711aa|down_2|NZ_CP047861.1_2691311_2693444_-	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|513aa|down_3|NZ_CP047861.1_2693478_2695017_-	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|602aa|down_4|NZ_CP047861.1_2695697_2697503_+	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|261aa|down_5|NZ_CP047861.1_2697734_2698517_+	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|286aa|down_6|NZ_CP047861.1_2698584_2699442_+	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|53aa|down_7|NZ_CP047861.1_2700099_2700258_-	NA	NA|57aa|down_8|NZ_CP047861.1_2700250_2700421_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|35aa|down_9|NZ_CP047861.1_2700937_2701042_+	NA
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	9	2701377-2701458	8	CRISPRCasFinder	no	csa3	DEDDh,csa3,cas3,DinG,WYL,RT	Type I-A	AAGAAGCCCCTAACAACTAAAGTTG	25	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA|53aa|up_2|NZ_CP047861.1_2700099_2700258_-,NA|35aa|up_0|NZ_CP047861.1_2700937_2701042_+,NA|364aa|down_0|NZ_CP047861.1_2701474_2702566_-,NA|77aa|down_5|NZ_CP047861.1_2706352_2706583_+	NA|369aa|up_9|NZ_CP047861.1_2689759_2690866_-	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional	NA|145aa|up_8|NZ_CP047861.1_2690865_2691300_-	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|711aa|up_7|NZ_CP047861.1_2691311_2693444_-	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|513aa|up_6|NZ_CP047861.1_2693478_2695017_-	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|602aa|up_5|NZ_CP047861.1_2695697_2697503_+	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|261aa|up_4|NZ_CP047861.1_2697734_2698517_+	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|286aa|up_3|NZ_CP047861.1_2698584_2699442_+	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|53aa|up_2|NZ_CP047861.1_2700099_2700258_-	NA	NA|57aa|up_1|NZ_CP047861.1_2700250_2700421_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|35aa|up_0|NZ_CP047861.1_2700937_2701042_+	NA	NA|364aa|down_0|NZ_CP047861.1_2701474_2702566_-	NA	NA|326aa|down_1|NZ_CP047861.1_2702831_2703809_-	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	csa3|107aa|down_2|NZ_CP047861.1_2703810_2704131_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|222aa|down_3|NZ_CP047861.1_2704282_2704948_+	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	NA|313aa|down_4|NZ_CP047861.1_2705383_2706322_+	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|77aa|down_5|NZ_CP047861.1_2706352_2706583_+	NA	NA|458aa|down_6|NZ_CP047861.1_2707254_2708628_+	pfam01878, EVE, EVE domain	NA|138aa|down_7|NZ_CP047861.1_2709084_2709498_+	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|148aa|down_8|NZ_CP047861.1_2709697_2710141_+	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|237aa|down_9|NZ_CP047861.1_2710261_2710972_-	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase
GCF_009913155.1_ASM991315v1	NZ_CP047861	Staphylococcus aureus strain UP_1322 chromosome, complete genome	10	2830612-2830693	9	CRISPRCasFinder	no	DEDDh	DEDDh,csa3,cas3,DinG,WYL,RT	Unclear	ACAATGCAAGTTGGGGTGGGGGCC	24	1	5	2830636-2830669|2830636-2830669|2830636-2830669|2830636-2830669|2830636-2830669	NZ_CP047861.1_886043-886010|NZ_CP047861.1_1284645-1284678|NZ_CP047861.1_284329-284296|NZ_CP047861.1_669893-669926|NZ_CP047861.1_2140878-2140911	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG,WYL,RT	NA,NA|81aa|down_4|NZ_CP047861.1_2836884_2837127_-,NA|61aa|down_6|NZ_CP047861.1_2838220_2838403_-,NA|114aa|down_7|NZ_CP047861.1_2838606_2838948_-	NA|48aa|up_9|NZ_CP047861.1_2820796_2820940_-	smart00794, AgrD, Staphylococcal AgrD protein	NA|188aa|up_8|NZ_CP047861.1_2820942_2821506_-	COG4512, AgrB, Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]	NA|45aa|up_7|NZ_CP047861.1_2821741_2821876_+	PRK14752, PRK14752, delta-lysin family phenol-soluble modulin	NA|262aa|up_6|NZ_CP047861.1_2822475_2823261_-	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|209aa|up_5|NZ_CP047861.1_2823621_2824248_-	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|420aa|up_4|NZ_CP047861.1_2824444_2825704_+	PRK10819, PRK10819, transport protein TonB; Provisional	NA|248aa|up_3|NZ_CP047861.1_2825728_2826472_-	pfam02517, Abi, CAAX protease self-immunity	NA|95aa|up_2|NZ_CP047861.1_2826646_2826931_+	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|539aa|up_1|NZ_CP047861.1_2827006_2828623_+	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|436aa|up_0|NZ_CP047861.1_2829162_2830470_-	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|408aa|down_0|NZ_CP047861.1_2830913_2832137_-	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|352aa|down_1|NZ_CP047861.1_2832572_2833628_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|339aa|down_2|NZ_CP047861.1_2833649_2834666_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|346aa|down_3|NZ_CP047861.1_2835784_2836822_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|81aa|down_4|NZ_CP047861.1_2836884_2837127_-	NA	NA|328aa|down_5|NZ_CP047861.1_2837137_2838121_-	pfam00535, Glycos_transf_2, Glycosyl transferase family 2	NA|61aa|down_6|NZ_CP047861.1_2838220_2838403_-	NA	NA|114aa|down_7|NZ_CP047861.1_2838606_2838948_-	NA	DEDDh|311aa|down_8|NZ_CP047861.1_2838953_2839886_-	PRK06195, PRK06195, DNA polymerase III subunit epsilon; Validated	NA|238aa|down_9|NZ_CP047861.1_2839901_2840615_-	COG2932, COG2932, Predicted transcriptional regulator [Transcription]
