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_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	1	650608-650715	1	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CAACTGCATAAGAGCCCCTAATCGCTAAAGCTCAAGGGG	39	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|39aa|up_8|NZ_CP039448.1_641366_641483_+,NA|169aa|down_5|NZ_CP039448.1_655361_655868_+,NA|239aa|down_6|NZ_CP039448.1_656029_656746_+	NA|210aa|up_9|NZ_CP039448.1_640680_641310_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|39aa|up_8|NZ_CP039448.1_641366_641483_+	NA	NA|313aa|up_7|NZ_CP039448.1_642396_643335_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_6|NZ_CP039448.1_643544_644081_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_5|NZ_CP039448.1_644250_644727_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_4|NZ_CP039448.1_644766_646062_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_3|NZ_CP039448.1_646089_646611_+	pfam08741, YwhD, YwhD family	NA|337aa|up_2|NZ_CP039448.1_647109_648120_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|128aa|up_1|NZ_CP039448.1_648427_648811_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_0|NZ_CP039448.1_648807_650469_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|down_0|NZ_CP039448.1_650734_651370_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|276aa|down_1|NZ_CP039448.1_651739_652567_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_2|NZ_CP039448.1_652717_653668_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_3|NZ_CP039448.1_653722_654442_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_4|NZ_CP039448.1_654425_655226_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_5|NZ_CP039448.1_655361_655868_+	NA	NA|239aa|down_6|NZ_CP039448.1_656029_656746_+	NA	NA|263aa|down_7|NZ_CP039448.1_656914_657703_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_8|NZ_CP039448.1_657955_658330_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_9|NZ_CP039448.1_659277_660207_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	2	767361-767446	2	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CAATGCGAGTTGGGGTGGGGCCCCAACA	28	1	1	767389-767418	NZ_CP039448.1_808460-808431	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|69aa|up_9|NZ_CP039448.1_754204_754411_+,NA|34aa|down_1|NZ_CP039448.1_768889_768991_+,NA|83aa|down_3|NZ_CP039448.1_770635_770884_-,NA|89aa|down_6|NZ_CP039448.1_772684_772951_+	NA|69aa|up_9|NZ_CP039448.1_754204_754411_+	NA	NA|237aa|up_8|NZ_CP039448.1_754507_755218_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NZ_CP039448.1_755201_756206_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NZ_CP039448.1_756679_758620_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NZ_CP039448.1_758890_760774_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NZ_CP039448.1_760785_762567_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NZ_CP039448.1_762788_763766_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NZ_CP039448.1_763758_765273_+	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|NZ_CP039448.1_765512_766571_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NZ_CP039448.1_766729_767272_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NZ_CP039448.1_767879_768797_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NZ_CP039448.1_768889_768991_+	NA	NA|502aa|down_2|NZ_CP039448.1_769068_770574_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|83aa|down_3|NZ_CP039448.1_770635_770884_-	NA	NA|167aa|down_4|NZ_CP039448.1_770913_771414_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_5|NZ_CP039448.1_771433_772300_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|89aa|down_6|NZ_CP039448.1_772684_772951_+	NA	NA|133aa|down_7|NZ_CP039448.1_773100_773499_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_8|NZ_CP039448.1_773461_775567_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_9|NZ_CP039448.1_775684_776656_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	3	987128-987285	1,3	PILER-CR,CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CCAACTTGCATTGCTTGTAGAATCTCTTTTCGAAATTCT,TCTTTTCGAAATTCTCTGTGTTGGGGCCC	39,29	1	11	987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253|987235-987253	NZ_CP039448.1_813776-813794|NZ_CP039448.1_822945-822963|NZ_CP039448.1_1327202-1327220|NZ_CP039448.1_1327260-1327278|NZ_CP039448.1_2018027-2018045|NZ_CP039448.1_184006-184024|NZ_CP039448.1_614454-614436|NZ_CP039448.1_966962-966944|NZ_CP039448.1_1185893-1185875|NZ_CP039448.1_1399028-1399046|NZ_CP039448.1_1737813-1737831	NA:NA	2,1	2	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA,NA	NA|192aa|up_9|NZ_CP039448.1_973566_974142_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|up_8|NZ_CP039448.1_974146_974671_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|up_7|NZ_CP039448.1_974686_975262_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|up_6|NZ_CP039448.1_975421_978898_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|up_5|NZ_CP039448.1_978898_982552_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|up_4|NZ_CP039448.1_982717_983620_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]	NA|130aa|up_3|NZ_CP039448.1_983947_984337_+	PRK13673, PRK13673, hypothetical protein; Provisional	NA|439aa|up_2|NZ_CP039448.1_984508_985825_-	PRK13512, PRK13512, coenzyme A disulfide reductase; Provisional	NA|275aa|up_1|NZ_CP039448.1_985876_986701_-	cd07516, HAD_Pase, phosphatase, similar to Escherichia coli Cof and Thermotoga maritima TM0651; belongs to the haloacid dehalogenase-like superfamily	NA|103aa|up_0|NZ_CP039448.1_986814_987123_+	COG2151, PaaD, Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]	NA|605aa|down_0|NZ_CP039448.1_987776_989591_+	COG1835, COG1835, Predicted acyltransferases [Lipid metabolism]	NA|870aa|down_1|NZ_CP039448.1_989793_992403_+	TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB	NA|290aa|down_2|NZ_CP039448.1_992461_993331_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|382aa|down_3|NZ_CP039448.1_993440_994586_+	COG0119, LeuA, Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]	NA|214aa|down_4|NZ_CP039448.1_994569_995211_+	COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]	NA|172aa|down_5|NZ_CP039448.1_996305_996821_+	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|145aa|down_6|NZ_CP039448.1_997131_997566_+	pfam03642, MAP, MAP domain	NA|62aa|down_7|NZ_CP039448.1_997822_998008_-	pfam11151, DUF2929, Protein of unknown function (DUF2929)	NA|314aa|down_8|NZ_CP039448.1_998302_999244_+	PRK09352, PRK09352, beta-ketoacyl-ACP synthase 3	NA|415aa|down_9|NZ_CP039448.1_999255_1000500_+	TIGR03150, fabF, beta-ketoacyl-acyl-carrier-protein synthase II
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	4	1105653-1105745	4	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	AAAAGCCCCTAACAACTAAAGGTTGTAAGG	30	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|66aa|up_3|NZ_CP039448.1_1102079_1102277_-,NA|45aa|down_0|NZ_CP039448.1_1105754_1105889_-,NA|432aa|down_1|NZ_CP039448.1_1106040_1107336_+,NA|68aa|down_2|NZ_CP039448.1_1107356_1107560_-	NA|730aa|up_9|NZ_CP039448.1_1094111_1096301_+	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL	NA|495aa|up_8|NZ_CP039448.1_1096279_1097764_+	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|343aa|up_7|NZ_CP039448.1_1097756_1098785_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|189aa|up_6|NZ_CP039448.1_1098787_1099354_+	COG0299, PurN, Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]	NA|493aa|up_5|NZ_CP039448.1_1099368_1100847_+	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional	NA|416aa|up_4|NZ_CP039448.1_1100868_1102116_+	PRK13790, PRK13790, phosphoribosylamine--glycine ligase; Provisional	NA|66aa|up_3|NZ_CP039448.1_1102079_1102277_-	NA	NA|269aa|up_2|NZ_CP039448.1_1102381_1103188_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|467aa|up_1|NZ_CP039448.1_1103180_1104581_-	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system	NA|192aa|up_0|NZ_CP039448.1_1104595_1105171_-	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|45aa|down_0|NZ_CP039448.1_1105754_1105889_-	NA	NA|432aa|down_1|NZ_CP039448.1_1106040_1107336_+	NA	NA|68aa|down_2|NZ_CP039448.1_1107356_1107560_-	NA	NA|391aa|down_3|NZ_CP039448.1_1107760_1108933_+	COG1092, COG1092, Predicted SAM-dependent methyltransferases [General function prediction only]	NA|181aa|down_4|NZ_CP039448.1_1108986_1109529_+	pfam05128, DUF697, Domain of unknown function (DUF697)	NA|89aa|down_5|NZ_CP039448.1_1109682_1109949_+	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|573aa|down_6|NZ_CP039448.1_1109951_1111670_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|78aa|down_7|NZ_CP039448.1_1111906_1112140_-	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_8|NZ_CP039448.1_1112337_1113699_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|340aa|down_9|NZ_CP039448.1_1113695_1114715_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	5	1264493-1264585	5	CRISPRCasFinder	no	cas3	WYL,cas3,DEDDh,DinG,csa3	Unclear	TAAGAAACAGTAATCAATAAATTGATAACT	30	0	0	NA	NA	NA	1	1	Unclear	WYL,cas3,DEDDh,DinG,csa3	NA,NA	NA|215aa|up_9|NZ_CP039448.1_1254367_1255012_+	COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]	NA|214aa|up_8|NZ_CP039448.1_1255018_1255660_+	COG1564, THI80, Thiamine pyrophosphokinase [Coenzyme metabolism]	NA|63aa|up_7|NZ_CP039448.1_1256041_1256230_-	PRK00359, rpmB, 50S ribosomal protein L28; Reviewed	NA|125aa|up_6|NZ_CP039448.1_1256672_1257047_+	COG1302, COG1302, Uncharacterized protein conserved in bacteria [Function unknown]	NA|549aa|up_5|NZ_CP039448.1_1257061_1258708_+	COG1461, COG1461, Predicted kinase related to dihydroxyacetone kinase [General function prediction only]	cas3|687aa|up_4|NZ_CP039448.1_1258897_1260958_+	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	NA|191aa|up_3|NZ_CP039448.1_1261159_1261732_+	PRK04424, PRK04424, transcription factor FapR	NA|329aa|up_2|NZ_CP039448.1_1261736_1262723_+	PRK05331, PRK05331, phosphate acyltransferase PlsX	NA|309aa|up_1|NZ_CP039448.1_1262715_1263642_+	COG0331, FabD, (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]	NA|245aa|up_0|NZ_CP039448.1_1263634_1264369_+	PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Validated	NA|78aa|down_0|NZ_CP039448.1_1264674_1264908_+	PRK00982, acpP, acyl carrier protein; Provisional	NA|244aa|down_1|NZ_CP039448.1_1265023_1265755_+	PRK00102, rnc, ribonuclease III; Reviewed	NA|1189aa|down_2|NZ_CP039448.1_1265901_1269468_+	COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]	NA|417aa|down_3|NZ_CP039448.1_1269467_1270718_+	PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional	NA|111aa|down_4|NZ_CP039448.1_1270704_1271037_+	PRK00118, PRK00118, putative DNA-binding protein; Validated	NA|456aa|down_5|NZ_CP039448.1_1271062_1272430_+	PRK10867, PRK10867, signal recognition particle protein; Provisional	NA|92aa|down_6|NZ_CP039448.1_1272775_1273051_+	COG0228, RpsP, Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]	NA|168aa|down_7|NZ_CP039448.1_1273238_1273742_+	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional	NA|246aa|down_8|NZ_CP039448.1_1273741_1274479_+	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed	NA|117aa|down_9|NZ_CP039448.1_1274581_1274932_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	6	1469740-1469819	6	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CCAACTTGCACATTATTGTAAGCTG	25	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|68aa|up_5|NZ_CP039448.1_1461220_1461424_-,NA	NA|379aa|up_9|NZ_CP039448.1_1455570_1456707_+	pfam05816, TelA, Toxic anion resistance protein (TelA)	NA|448aa|up_8|NZ_CP039448.1_1456780_1458124_-	COG1114, BrnQ, Branched-chain amino acid permeases [Amino acid transport and metabolism]	NA|629aa|up_7|NZ_CP039448.1_1458348_1460235_-	COG4548, NorD, Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]	NA|264aa|up_6|NZ_CP039448.1_1460248_1461040_-	COG0714, COG0714, MoxR-like ATPases [General function prediction only]	NA|68aa|up_5|NZ_CP039448.1_1461220_1461424_-	NA	NA|270aa|up_4|NZ_CP039448.1_1461452_1462262_-	cd08346, PcpA_N_like, N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins	NA|423aa|up_3|NZ_CP039448.1_1462841_1464110_-	PRK05704, PRK05704, 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase	NA|933aa|up_2|NZ_CP039448.1_1464123_1466922_-	PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component; Reviewed	NA|452aa|up_1|NZ_CP039448.1_1467210_1468566_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|220aa|up_0|NZ_CP039448.1_1468562_1469222_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|205aa|down_0|NZ_CP039448.1_1470363_1470978_-	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|357aa|down_1|NZ_CP039448.1_1470994_1472065_-	PRK12446, PRK12446, undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed	NA|170aa|down_2|NZ_CP039448.1_1472076_1472586_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|497aa|down_3|NZ_CP039448.1_1472985_1474476_-	COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer membrane]	NA|74aa|down_4|NZ_CP039448.1_1474667_1474889_-	COG4479, COG4479, Uncharacterized protein conserved in bacteria [Function unknown]	NA|167aa|down_5|NZ_CP039448.1_1474888_1475389_-	COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate transport and metabolism]	NA|143aa|down_6|NZ_CP039448.1_1475400_1475829_-	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB	NA|178aa|down_7|NZ_CP039448.1_1475821_1476355_-	PRK13014, PRK13014, methionine sulfoxide reductase A; Provisional	NA|280aa|down_8|NZ_CP039448.1_1476444_1477284_-	TIGR00762, DegV, EDD domain protein, DegV family	NA|160aa|down_9|NZ_CP039448.1_1477298_1477778_-	pfam00186, DHFR_1, Dihydrofolate reductase
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	7	2016574-2016655	7	CRISPRCasFinder	no	DEDDh	WYL,cas3,DEDDh,DinG,csa3	Unclear	TGTTGGGGCCCCGCCAACCTGCATT	25	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|92aa|up_6|NZ_CP039448.1_2010771_2011047_+,NA|129aa|up_1|NZ_CP039448.1_2015029_2015416_-,NA|138aa|down_1|NZ_CP039448.1_2018338_2018752_-,NA|37aa|down_2|NZ_CP039448.1_2018780_2018891_-,NA|31aa|down_6|NZ_CP039448.1_2021896_2021989_-	NA|419aa|up_9|NZ_CP039448.1_2008694_2009951_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NZ_CP039448.1_2009953_2010154_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NZ_CP039448.1_2010300_2010765_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NZ_CP039448.1_2010771_2011047_+	NA	NA|406aa|up_5|NZ_CP039448.1_2011324_2012542_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NZ_CP039448.1_2012654_2013284_-	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_CP039448.1_2013273_2014317_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NZ_CP039448.1_2014313_2015015_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NZ_CP039448.1_2015029_2015416_-	NA	NA|253aa|up_0|NZ_CP039448.1_2015632_2016391_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NZ_CP039448.1_2016919_2017906_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NZ_CP039448.1_2018338_2018752_-	NA	NA|37aa|down_2|NZ_CP039448.1_2018780_2018891_-	NA	NA|244aa|down_3|NZ_CP039448.1_2018976_2019708_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_4|NZ_CP039448.1_2019709_2021023_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_5|NZ_CP039448.1_2021314_2021815_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_6|NZ_CP039448.1_2021896_2021989_-	NA	DEDDh|185aa|down_7|NZ_CP039448.1_2022205_2022760_+	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_CP039448.1_2022826_2023897_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_9|NZ_CP039448.1_2024143_2024674_-	pfam11667, DUF3267, Putative zincin peptidase
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	8	2076345-2076430	8	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	TGTTGAGGCCCCACCCCAACTTACATTGT	29	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|59aa|up_6|NZ_CP039448.1_2066485_2066662_-,NA|33aa|up_5|NZ_CP039448.1_2066903_2067002_-,NA|156aa|down_3|NZ_CP039448.1_2081613_2082081_-,NA|338aa|down_4|NZ_CP039448.1_2082093_2083107_-,NA|71aa|down_6|NZ_CP039448.1_2084059_2084272_-,NA|218aa|down_8|NZ_CP039448.1_2084983_2085637_-,NA|114aa|down_9|NZ_CP039448.1_2085667_2086009_-	NA|227aa|up_9|NZ_CP039448.1_2063990_2064671_-	pfam13346, ABC2_membrane_5, ABC-2 family transporter protein	NA|299aa|up_8|NZ_CP039448.1_2064671_2065568_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|127aa|up_7|NZ_CP039448.1_2065564_2065945_-	COG1725, COG1725, Predicted transcriptional regulators [Transcription]	NA|59aa|up_6|NZ_CP039448.1_2066485_2066662_-	NA	NA|33aa|up_5|NZ_CP039448.1_2066903_2067002_-	NA	NA|429aa|up_4|NZ_CP039448.1_2067201_2068488_+	PRK08637, PRK08637, hypothetical protein; Provisional	NA|331aa|up_3|NZ_CP039448.1_2070892_2071885_+	TIGR03395, Sphingomyelinase_C, sphingomyelin phosphodiesterase	NA|339aa|up_2|NZ_CP039448.1_2072377_2073394_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|352aa|up_1|NZ_CP039448.1_2073415_2074471_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|408aa|up_0|NZ_CP039448.1_2074906_2076130_+	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|436aa|down_0|NZ_CP039448.1_2076570_2077878_+	COG0168, TrkG, Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]	NA|283aa|down_1|NZ_CP039448.1_2078776_2079625_-	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|305aa|down_2|NZ_CP039448.1_2079682_2080597_-	cd01138, FeuA, Periplasmic binding protein FeuA	NA|156aa|down_3|NZ_CP039448.1_2081613_2082081_-	NA	NA|338aa|down_4|NZ_CP039448.1_2082093_2083107_-	NA	NA|190aa|down_5|NZ_CP039448.1_2083493_2084063_-	COG3728, XtmA, Phage terminase, small subunit [DNA replication, recombination, and repair]	NA|71aa|down_6|NZ_CP039448.1_2084059_2084272_-	NA	NA|176aa|down_7|NZ_CP039448.1_2084403_2084931_-	COG5577, COG5577, Spore coat protein [Cell envelope biogenesis, outer membrane]	NA|218aa|down_8|NZ_CP039448.1_2084983_2085637_-	NA	NA|114aa|down_9|NZ_CP039448.1_2085667_2086009_-	NA
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	9	2091978-2092066	9	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	GTTTTTGACTGACTTCTCAATCA	23	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|88aa|up_9|NZ_CP039448.1_2087187_2087451_-,NA|119aa|up_8|NZ_CP039448.1_2087452_2087809_-,NA|128aa|up_4|NZ_CP039448.1_2090694_2091078_-,NA|68aa|up_3|NZ_CP039448.1_2091079_2091283_-,NA|52aa|up_2|NZ_CP039448.1_2091267_2091423_-,NA	NA|88aa|up_9|NZ_CP039448.1_2087187_2087451_-	NA	NA|119aa|up_8|NZ_CP039448.1_2087452_2087809_-	NA	NA|457aa|up_7|NZ_CP039448.1_2088051_2089422_-	TIGR01613, putative_primase, phage/plasmid primase, P4 family, C-terminal domain	NA|290aa|up_6|NZ_CP039448.1_2089433_2090303_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|109aa|up_5|NZ_CP039448.1_2090367_2090694_-	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|128aa|up_4|NZ_CP039448.1_2090694_2091078_-	NA	NA|68aa|up_3|NZ_CP039448.1_2091079_2091283_-	NA	NA|52aa|up_2|NZ_CP039448.1_2091267_2091423_-	NA	NA|106aa|up_1|NZ_CP039448.1_2091419_2091737_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|73aa|up_0|NZ_CP039448.1_2091741_2091960_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|225aa|down_0|NZ_CP039448.1_2092132_2092807_+	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|391aa|down_1|NZ_CP039448.1_2092820_2093993_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|539aa|down_2|NZ_CP039448.1_2094061_2095678_-	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|95aa|down_3|NZ_CP039448.1_2095753_2096038_-	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|248aa|down_4|NZ_CP039448.1_2096212_2096956_+	pfam02517, Abi, CAAX protease self-immunity	NA|400aa|down_5|NZ_CP039448.1_2096980_2098180_-	PRK10819, PRK10819, transport protein TonB; Provisional	NA|209aa|down_6|NZ_CP039448.1_2098376_2099003_+	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|262aa|down_7|NZ_CP039448.1_2099363_2100149_+	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|45aa|down_8|NZ_CP039448.1_2100747_2100882_-	PRK14752, PRK14752, delta-lysin family phenol-soluble modulin	NA|190aa|down_9|NZ_CP039448.1_2101117_2101687_+	smart00793, AgrB, Accessory gene regulator B
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	10	2339372-2339456	10	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CCAACTTGCACATTATTGTATGCTGACTTT	30	1	4	2339402-2339426|2339402-2339426|2339402-2339426|2339402-2339426	NZ_CP039448.1_1190036-1190012|NZ_CP039448.1_1912209-1912233|NZ_CP039448.1_2339458-2339482|NZ_CP039448.1_1189980-1189956	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|55aa|up_9|NZ_CP039448.1_2329879_2330044_+,NA|106aa|up_8|NZ_CP039448.1_2330288_2330606_+,NA|84aa|up_5|NZ_CP039448.1_2335730_2335982_+,NA|57aa|up_0|NZ_CP039448.1_2339122_2339293_+,NA	NA|55aa|up_9|NZ_CP039448.1_2329879_2330044_+	NA	NA|106aa|up_8|NZ_CP039448.1_2330288_2330606_+	NA	NA|1056aa|up_7|NZ_CP039448.1_2330792_2333960_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_CP039448.1_2334076_2335342_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_CP039448.1_2335730_2335982_+	NA	NA|255aa|up_4|NZ_CP039448.1_2335973_2336738_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_CP039448.1_2336900_2337341_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_CP039448.1_2337333_2338545_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_CP039448.1_2338646_2338997_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NZ_CP039448.1_2339122_2339293_+	NA	NA|341aa|down_0|NZ_CP039448.1_2339633_2340656_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_CP039448.1_2340675_2341275_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_CP039448.1_2341281_2341515_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_CP039448.1_2341520_2341967_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_CP039448.1_2341980_2342466_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_CP039448.1_2342462_2343722_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_CP039448.1_2343784_2344279_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_CP039448.1_2344280_2344787_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_CP039448.1_2344817_2345822_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_CP039448.1_2345990_2346596_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	11	2493760-2493852	11	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	TTCTTCAAATTTATTTGTTAGAAAG	25	0	0	NA	NA	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|35aa|up_2|NZ_CP039448.1_2491413_2491518_+,NA|32aa|down_0|NZ_CP039448.1_2494056_2494152_-,NA|61aa|down_2|NZ_CP039448.1_2495731_2495914_-	NA|200aa|up_9|NZ_CP039448.1_2484890_2485490_-	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]	NA|121aa|up_8|NZ_CP039448.1_2485508_2485871_-	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|417aa|up_7|NZ_CP039448.1_2486125_2487376_+	pfam02388, FemAB, FemAB family	NA|244aa|up_6|NZ_CP039448.1_2487472_2488204_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|240aa|up_5|NZ_CP039448.1_2488200_2488920_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|260aa|up_4|NZ_CP039448.1_2488900_2489680_-	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|480aa|up_3|NZ_CP039448.1_2489800_2491240_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|35aa|up_2|NZ_CP039448.1_2491413_2491518_+	NA	NA|229aa|up_1|NZ_CP039448.1_2491671_2492358_-	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|289aa|up_0|NZ_CP039448.1_2492683_2493550_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|32aa|down_0|NZ_CP039448.1_2494056_2494152_-	NA	NA|437aa|down_1|NZ_CP039448.1_2494246_2495557_+	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|61aa|down_2|NZ_CP039448.1_2495731_2495914_-	NA	NA|310aa|down_3|NZ_CP039448.1_2496048_2496978_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|316aa|down_4|NZ_CP039448.1_2497545_2498493_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|326aa|down_5|NZ_CP039448.1_2498494_2499472_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|down_6|NZ_CP039448.1_2499523_2499991_-	pfam06177, QueT, QueT transporter	NA|231aa|down_7|NZ_CP039448.1_2500001_2500694_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|down_8|NZ_CP039448.1_2500704_2501820_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|336aa|down_9|NZ_CP039448.1_2501797_2502805_-	PRK06256, PRK06256, biotin synthase; Validated
GCF_008330045.1_ASM833004v1	NZ_CP039448	Staphylococcus aureus strain VGC1 chromosome, complete genome	12	2850917-2851002	12	CRISPRCasFinder	no		WYL,cas3,DEDDh,DinG,csa3	Orphan	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	12	2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972|2850947-2850972	NZ_CP039448.1_614520-614495|NZ_CP039448.1_1190151-1190126|NZ_CP039448.1_1327135-1327160|NZ_CP039448.1_776847-776822|NZ_CP039448.1_776903-776878|NZ_CP039448.1_1883387-1883362|NZ_CP039448.1_2373700-2373675|NZ_CP039448.1_822821-822846|NZ_CP039448.1_2066299-2066324|NZ_CP039448.1_2256997-2257022|NZ_CP039448.1_2177682-2177657|NZ_CP039448.1_2178020-2177995	NA	1	1	Orphan	WYL,cas3,DEDDh,DinG,csa3	NA|64aa|up_6|NZ_CP039448.1_2846394_2846586_+,NA|166aa|up_5|NZ_CP039448.1_2847192_2847690_-,NA|64aa|up_4|NZ_CP039448.1_2848146_2848338_+,NA	NA|171aa|up_9|NZ_CP039448.1_2842871_2843384_-	COG3247, HdeD, Uncharacterized conserved protein [Function unknown]	NA|253aa|up_8|NZ_CP039448.1_2843673_2844432_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|627aa|up_7|NZ_CP039448.1_2844421_2846302_+	pfam02687, FtsX, FtsX-like permease family	NA|64aa|up_6|NZ_CP039448.1_2846394_2846586_+	NA	NA|166aa|up_5|NZ_CP039448.1_2847192_2847690_-	NA	NA|64aa|up_4|NZ_CP039448.1_2848146_2848338_+	NA	NA|67aa|up_3|NZ_CP039448.1_2848729_2848930_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|190aa|up_2|NZ_CP039448.1_2849056_2849626_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|132aa|up_1|NZ_CP039448.1_2849876_2850272_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|118aa|up_0|NZ_CP039448.1_2850339_2850693_-	pfam11345, DUF3147, Protein of unknown function (DUF3147)	NA|280aa|down_0|NZ_CP039448.1_2851302_2852142_-	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|240aa|down_1|NZ_CP039448.1_2852184_2852904_-	PRK00107, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA|626aa|down_2|NZ_CP039448.1_2852903_2854781_-	PRK05192, PRK05192, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	NA|460aa|down_3|NZ_CP039448.1_2854847_2856227_-	PRK05291, trmE, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE	NA|118aa|down_4|NZ_CP039448.1_2856370_2856724_-	PRK00499, rnpA, ribonuclease P; Reviewed	NA|46aa|down_5|NZ_CP039448.1_2856844_2856982_-	pfam00468, Ribosomal_L34, Ribosomal protein L34	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA
