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_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	1	117372-117459	1	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|NZ_CP013231.1_117248_117368_+,NA|45aa|down_0|NZ_CP013231.1_117468_117603_-,NA|432aa|down_1|NZ_CP013231.1_117754_119050_+	NA|730aa|up_9|NZ_CP013231.1_105826_108016_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_8|NZ_CP013231.1_107994_109479_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_7|NZ_CP013231.1_109471_110500_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_6|NZ_CP013231.1_110502_111069_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_5|NZ_CP013231.1_111083_112562_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_4|NZ_CP013231.1_112583_113831_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|269aa|up_3|NZ_CP013231.1_114095_114902_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_2|NZ_CP013231.1_114894_116295_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_1|NZ_CP013231.1_116309_116885_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|40aa|up_0|NZ_CP013231.1_117248_117368_+	NA	NA|45aa|down_0|NZ_CP013231.1_117468_117603_-	NA	NA|432aa|down_1|NZ_CP013231.1_117754_119050_+	NA	NA|391aa|down_2|NZ_CP013231.1_119474_120647_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_3|NZ_CP013231.1_120700_121243_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_4|NZ_CP013231.1_121396_121663_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_5|NZ_CP013231.1_121665_123384_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_6|NZ_CP013231.1_123620_123854_-	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|NZ_CP013231.1_124051_125413_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_8|NZ_CP013231.1_125409_126429_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|221aa|down_9|NZ_CP013231.1_126561_127224_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	2	1059408-1059486	2	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	6	1059431-1059463|1059431-1059463|1059431-1059463|1059431-1059463|1059431-1059463|1059431-1059463	NZ_CP013231.1_201739-201707|NZ_CP013231.1_409864-409832|NZ_CP013231.1_724348-724380|NZ_CP013231.1_1695792-1695824|NZ_CP013231.1_2758232-2758264|NZ_CP013231.1_499115-499147	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|NZ_CP013231.1_1053602_1053878_+,NA|129aa|up_1|NZ_CP013231.1_1057863_1058250_-,NA|138aa|down_1|NZ_CP013231.1_1061228_1061642_-,NA|37aa|down_2|NZ_CP013231.1_1061670_1061781_-,NA|31aa|down_6|NZ_CP013231.1_1064786_1064879_-	NA|419aa|up_9|NZ_CP013231.1_1051525_1052782_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NZ_CP013231.1_1052784_1052985_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NZ_CP013231.1_1053131_1053596_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NZ_CP013231.1_1053602_1053878_+	NA	NA|406aa|up_5|NZ_CP013231.1_1054155_1055373_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NZ_CP013231.1_1055488_1056118_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|up_3|NZ_CP013231.1_1056107_1057151_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NZ_CP013231.1_1057147_1057849_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NZ_CP013231.1_1057863_1058250_-	NA	NA|253aa|up_0|NZ_CP013231.1_1058466_1059225_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NZ_CP013231.1_1059752_1060739_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NZ_CP013231.1_1061228_1061642_-	NA	NA|37aa|down_2|NZ_CP013231.1_1061670_1061781_-	NA	NA|244aa|down_3|NZ_CP013231.1_1061866_1062598_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NZ_CP013231.1_1062599_1063913_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NZ_CP013231.1_1064204_1064705_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NZ_CP013231.1_1064786_1064879_-	NA	DEDDh|185aa|down_7|NZ_CP013231.1_1065093_1065648_+	cd06130, DNA_pol_III_epsilon_like, an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III	NA|357aa|down_8|NZ_CP013231.1_1065715_1066786_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NZ_CP013231.1_1067032_1067563_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	3	1294357-1294507	3	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|NZ_CP013231.1_1289228_1289459_-,NA|364aa|up_0|NZ_CP013231.1_1293247_1294339_+,NA|35aa|down_0|NZ_CP013231.1_1294838_1294943_-,NA|31aa|down_2|NZ_CP013231.1_1297054_1297147_+	NA|237aa|up_9|NZ_CP013231.1_1284838_1285549_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_CP013231.1_1285669_1286113_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_CP013231.1_1286312_1286726_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_CP013231.1_1287183_1288557_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_CP013231.1_1289228_1289459_-	NA	NA|313aa|up_4|NZ_CP013231.1_1289489_1290428_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_CP013231.1_1290862_1291528_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_CP013231.1_1291679_1292000_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_CP013231.1_1292001_1292982_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_CP013231.1_1293247_1294339_+	NA	NA|35aa|down_0|NZ_CP013231.1_1294838_1294943_-	NA	NA|379aa|down_1|NZ_CP013231.1_1295629_1296766_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NZ_CP013231.1_1297054_1297147_+	NA	NA|286aa|down_3|NZ_CP013231.1_1297851_1298709_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NZ_CP013231.1_1298776_1299559_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NZ_CP013231.1_1299790_1301596_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NZ_CP013231.1_1302276_1303815_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NZ_CP013231.1_1303849_1305982_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NZ_CP013231.1_1305993_1306428_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NZ_CP013231.1_1306427_1307534_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	4	1418274-1418467	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	13	1418297-1418329|1418297-1418329|1418297-1418329|1418297-1418329|1418297-1418329|1418353-1418388|1418353-1418388|1418353-1418388|1418353-1418388|1418412-1418444|1418412-1418444|1418412-1418444|1418412-1418444	NZ_CP013231.1_201739-201707|NZ_CP013231.1_409864-409832|NZ_CP013231.1_499115-499147|NZ_CP013231.1_1695792-1695824|NZ_CP013231.1_2758232-2758264|NZ_CP013231.1_201686-201651|NZ_CP013231.1_902833-902798|NZ_CP013231.1_724287-724322|NZ_CP013231.1_1070234-1070269|NZ_CP013231.1_201739-201707|NZ_CP013231.1_409864-409832|NZ_CP013231.1_1695792-1695824|NZ_CP013231.1_2758232-2758264	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NZ_CP013231.1_1408801_1408966_+,NA|106aa|up_8|NZ_CP013231.1_1409210_1409528_+,NA|84aa|up_5|NZ_CP013231.1_1414652_1414904_+,NA|57aa|up_0|NZ_CP013231.1_1418043_1418214_+,NA	NA|55aa|up_9|NZ_CP013231.1_1408801_1408966_+	NA	NA|106aa|up_8|NZ_CP013231.1_1409210_1409528_+	NA	NA|1056aa|up_7|NZ_CP013231.1_1409714_1412882_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP013231.1_1412998_1414264_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP013231.1_1414652_1414904_+	NA	NA|255aa|up_4|NZ_CP013231.1_1414895_1415660_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP013231.1_1415821_1416262_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_CP013231.1_1416254_1417466_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP013231.1_1417567_1417918_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NZ_CP013231.1_1418043_1418214_+	NA	NA|341aa|down_0|NZ_CP013231.1_1418608_1419631_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_CP013231.1_1419650_1420250_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_CP013231.1_1420256_1420490_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_CP013231.1_1420495_1420942_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_CP013231.1_1420955_1421441_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_CP013231.1_1421437_1422697_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_CP013231.1_1422759_1423254_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_CP013231.1_1423255_1423762_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_CP013231.1_1423792_1424797_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_CP013231.1_1424966_1425572_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	5	2338066-2338166	4	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|70aa|up_9|NZ_CP013231.1_2329639_2329849_-,NA|128aa|up_7|NZ_CP013231.1_2330673_2331057_-,NA|98aa|up_5|NZ_CP013231.1_2332010_2332304_-,NA|34aa|up_0|NZ_CP013231.1_2337290_2337392_+,NA|221aa|down_1|NZ_CP013231.1_2339256_2339919_-,NA|179aa|down_7|NZ_CP013231.1_2346010_2346547_-	NA|70aa|up_9|NZ_CP013231.1_2329639_2329849_-	NA	NA|194aa|up_8|NZ_CP013231.1_2330026_2330608_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_7|NZ_CP013231.1_2330673_2331057_-	NA	NA|209aa|up_6|NZ_CP013231.1_2331311_2331938_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|98aa|up_5|NZ_CP013231.1_2332010_2332304_-	NA	NA|508aa|up_4|NZ_CP013231.1_2332381_2333905_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NZ_CP013231.1_2333920_2334490_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NZ_CP013231.1_2334981_2335737_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NZ_CP013231.1_2335817_2337206_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NZ_CP013231.1_2337290_2337392_+	NA	NA|319aa|down_0|NZ_CP013231.1_2338182_2339139_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NZ_CP013231.1_2339256_2339919_-	NA	NA|136aa|down_2|NZ_CP013231.1_2340061_2340469_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NZ_CP013231.1_2340981_2341560_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NZ_CP013231.1_2341559_2342828_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NZ_CP013231.1_2342865_2344332_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NZ_CP013231.1_2344356_2345898_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NZ_CP013231.1_2346010_2346547_-	NA	NA|235aa|down_8|NZ_CP013231.1_2346939_2347644_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NZ_CP013231.1_2348042_2348315_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	6	2582356-2582448	5	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|NZ_CP013231.1_2578840_2578948_+,NA|169aa|down_4|NZ_CP013231.1_2586195_2586702_+,NA|239aa|down_5|NZ_CP013231.1_2586863_2587580_+	NA|313aa|up_9|NZ_CP013231.1_2573042_2573981_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NZ_CP013231.1_2574191_2574728_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NZ_CP013231.1_2574896_2575373_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NZ_CP013231.1_2575412_2576708_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NZ_CP013231.1_2576735_2577257_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NZ_CP013231.1_2577755_2578766_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NZ_CP013231.1_2578840_2578948_+	NA	NA|128aa|up_2|NZ_CP013231.1_2579073_2579457_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NZ_CP013231.1_2579453_2581115_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NZ_CP013231.1_2581502_2582138_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|276aa|down_0|NZ_CP013231.1_2582576_2583404_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NZ_CP013231.1_2583551_2584502_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NZ_CP013231.1_2584556_2585276_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NZ_CP013231.1_2585259_2586060_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NZ_CP013231.1_2586195_2586702_+	NA	NA|239aa|down_5|NZ_CP013231.1_2586863_2587580_+	NA	NA|263aa|down_6|NZ_CP013231.1_2587748_2588537_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NZ_CP013231.1_2588787_2589162_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|179aa|down_8|NZ_CP013231.1_2590877_2591414_-	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|168aa|down_9|NZ_CP013231.1_2591394_2591898_-	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	7	2758166-2758251	6	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	5	2758196-2758221|2758196-2758221|2758196-2758221|2758196-2758221|2758196-2758221	NZ_CP013231.1_1861212-1861237|NZ_CP013231.1_1861268-1861293|NZ_CP013231.1_2721158-2721133|NZ_CP013231.1_2721214-2721189|NZ_CP013231.1_2864304-2864279	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|NZ_CP013231.1_2745418_2746258_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_CP013231.1_2746431_2747082_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_CP013231.1_2747078_2747315_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_CP013231.1_2747583_2749569_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_CP013231.1_2749576_2752423_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_CP013231.1_2753084_2754017_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_CP013231.1_2754022_2754862_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_CP013231.1_2754869_2755355_+	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|NZ_CP013231.1_2755362_2756802_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NZ_CP013231.1_2756868_2757804_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_CP013231.1_2758683_2759595_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_CP013231.1_2759591_2760587_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_CP013231.1_2760696_2761641_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_CP013231.1_2762214_2762802_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NZ_CP013231.1_2763044_2763947_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NZ_CP013231.1_2764648_2765278_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NZ_CP013231.1_2766037_2767051_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NZ_CP013231.1_2767103_2768114_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NZ_CP013231.1_2768252_2769443_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NZ_CP013231.1_2769564_2770326_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	8	2801494-2801575	7	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	2801518-2801551|2801518-2801551	NZ_CP013231.1_409910-409877|NZ_CP013231.1_499069-499102	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|38aa|up_1|NZ_CP013231.1_2800396_2800510_+,NA	NA|206aa|up_9|NZ_CP013231.1_2795251_2795869_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_8|NZ_CP013231.1_2796023_2796518_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_7|NZ_CP013231.1_2796916_2797339_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_6|NZ_CP013231.1_2797486_2798203_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_5|NZ_CP013231.1_2798285_2798825_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_4|NZ_CP013231.1_2798974_2799295_-	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|NZ_CP013231.1_2799438_2799795_+	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|NZ_CP013231.1_2799952_2800333_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|38aa|up_1|NZ_CP013231.1_2800396_2800510_+	NA	NA|293aa|up_0|NZ_CP013231.1_2800511_2801390_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_CP013231.1_2802131_2802518_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_CP013231.1_2802510_2802807_+	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|NZ_CP013231.1_2803056_2804082_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NZ_CP013231.1_2804074_2804770_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NZ_CP013231.1_2804787_2805609_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|407aa|down_5|NZ_CP013231.1_2805751_2806972_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|243aa|down_6|NZ_CP013231.1_2807059_2807788_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|243aa|down_7|NZ_CP013231.1_2807811_2808540_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|153aa|down_8|NZ_CP013231.1_2808556_2809015_-	pfam06114, Peptidase_M78, IrrE N-terminal-like domain	NA|111aa|down_9|NZ_CP013231.1_2809026_2809359_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins
GCF_001580515.1_ASM158051v1	NZ_CP013231	Staphylococcus aureus strain UTSW MRSA 55 chromosome, complete genome	9	2864305-2864587	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	6	2864335-2864360|2864335-2864360|2864335-2864360|2864335-2864360|2864449-2864474|2864449-2864474	NZ_CP013231.1_2864279-2864304|NZ_CP013231.1_1861237-1861212|NZ_CP013231.1_1861293-1861268|NZ_CP013231.1_2721133-2721158|NZ_CP013231.1_2758277-2758252|NZ_CP013231.1_2299400-2299425	NA	4	4	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NZ_CP013231.1_2853193_2854690_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|110aa|up_8|NZ_CP013231.1_2854682_2855012_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NZ_CP013231.1_2855023_2855452_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NZ_CP013231.1_2855444_2857850_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NZ_CP013231.1_2857980_2858364_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NZ_CP013231.1_2858427_2859021_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NZ_CP013231.1_2859436_2859814_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NZ_CP013231.1_2860175_2861303_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NZ_CP013231.1_2861610_2862801_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NZ_CP013231.1_2862909_2864154_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NZ_CP013231.1_2864656_2865586_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NZ_CP013231.1_2865827_2867207_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NZ_CP013231.1_2867196_2868402_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NZ_CP013231.1_2868752_2870084_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NZ_CP013231.1_2870408_2870984_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NZ_CP013231.1_2870988_2871513_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NZ_CP013231.1_2871528_2872104_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NZ_CP013231.1_2872263_2875740_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NZ_CP013231.1_2875740_2879394_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NZ_CP013231.1_2879559_2880462_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
