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_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	1	423144-423244	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTATGAATTGAGTATTAAATTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|70aa|up_8|NZ_LT598688.1_414716_414926_-,NA|128aa|up_6|NZ_LT598688.1_415750_416134_-,NA|34aa|up_0|NZ_LT598688.1_422368_422470_+,NA|221aa|down_1|NZ_LT598688.1_424334_424997_-,NA|179aa|down_7|NZ_LT598688.1_431088_431625_-	NA|84aa|up_9|NZ_LT598688.1_414426_414678_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|70aa|up_8|NZ_LT598688.1_414716_414926_-	NA	NA|194aa|up_7|NZ_LT598688.1_415103_415685_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|128aa|up_6|NZ_LT598688.1_415750_416134_-	NA	NA|209aa|up_5|NZ_LT598688.1_416388_417015_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|508aa|up_4|NZ_LT598688.1_417459_418983_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_3|NZ_LT598688.1_418998_419568_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_2|NZ_LT598688.1_420059_420815_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|463aa|up_1|NZ_LT598688.1_420895_422284_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|34aa|up_0|NZ_LT598688.1_422368_422470_+	NA	NA|319aa|down_0|NZ_LT598688.1_423260_424217_-	PRK05035, PRK05035, electron transport complex protein RnfC; Provisional	NA|221aa|down_1|NZ_LT598688.1_424334_424997_-	NA	NA|136aa|down_2|NZ_LT598688.1_425139_425547_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_3|NZ_LT598688.1_426059_426638_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_4|NZ_LT598688.1_426637_427906_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_5|NZ_LT598688.1_427943_429410_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_6|NZ_LT598688.1_429434_430976_+	PRK00074, guaA, GMP synthase; Reviewed	NA|179aa|down_7|NZ_LT598688.1_431088_431625_-	NA	NA|235aa|down_8|NZ_LT598688.1_432017_432722_-	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|91aa|down_9|NZ_LT598688.1_433120_433393_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	2	662428-662520	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CTAAAGGTGAAGAGGAACGCAGTTGGATGCTA	32	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|36aa|up_3|NZ_LT598688.1_658911_659019_+,NA|169aa|down_4|NZ_LT598688.1_666267_666774_+,NA|239aa|down_5|NZ_LT598688.1_666935_667652_+	NA|313aa|up_9|NZ_LT598688.1_653113_654052_+	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|179aa|up_8|NZ_LT598688.1_654262_654799_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|159aa|up_7|NZ_LT598688.1_654967_655444_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|432aa|up_6|NZ_LT598688.1_655483_656779_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|174aa|up_5|NZ_LT598688.1_656806_657328_+	pfam08741, YwhD, YwhD family	NA|337aa|up_4|NZ_LT598688.1_657826_658837_+	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|36aa|up_3|NZ_LT598688.1_658911_659019_+	NA	NA|139aa|up_2|NZ_LT598688.1_659111_659528_+	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|554aa|up_1|NZ_LT598688.1_659524_661186_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|212aa|up_0|NZ_LT598688.1_661574_662210_+	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|296aa|down_0|NZ_LT598688.1_662588_663476_+	cd01143, YvrC, Periplasmic binding protein YvrC	NA|317aa|down_1|NZ_LT598688.1_663623_664574_+	pfam01032, FecCD, FecCD transport family	NA|240aa|down_2|NZ_LT598688.1_664628_665348_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|267aa|down_3|NZ_LT598688.1_665331_666132_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|169aa|down_4|NZ_LT598688.1_666267_666774_+	NA	NA|239aa|down_5|NZ_LT598688.1_666935_667652_+	NA	NA|263aa|down_6|NZ_LT598688.1_667820_668609_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|125aa|down_7|NZ_LT598688.1_668859_669234_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|310aa|down_8|NZ_LT598688.1_670181_671111_-	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|75aa|down_9|NZ_LT598688.1_671305_671530_-	pfam11148, DUF2922, Protein of unknown function (DUF2922)
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	3	778508-778590	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCAATTTCTACAGACAATGCAAGTTGG	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|69aa|up_9|NZ_LT598688.1_765108_765315_+,NA|34aa|down_1|NZ_LT598688.1_780046_780148_+,NA|52aa|down_8|NZ_LT598688.1_788327_788483_+	NA|69aa|up_9|NZ_LT598688.1_765108_765315_+	NA	NA|237aa|up_8|NZ_LT598688.1_765402_766113_+	COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]	NA|335aa|up_7|NZ_LT598688.1_766096_767101_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_6|NZ_LT598688.1_767574_769515_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|628aa|up_5|NZ_LT598688.1_769785_771669_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|594aa|up_4|NZ_LT598688.1_771680_773462_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|326aa|up_3|NZ_LT598688.1_773683_774661_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|505aa|up_2|NZ_LT598688.1_774653_776168_+	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_LT598688.1_776407_777466_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|181aa|up_0|NZ_LT598688.1_777816_778359_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|306aa|down_0|NZ_LT598688.1_779038_779956_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|34aa|down_1|NZ_LT598688.1_780046_780148_+	NA	NA|502aa|down_2|NZ_LT598688.1_780225_781731_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_3|NZ_LT598688.1_782071_782572_-	COG0780, COG0780, Enzyme related to GTP cyclohydrolase I [General function prediction only]	NA|289aa|down_4|NZ_LT598688.1_782591_783458_-	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|NZ_LT598688.1_784258_784657_+	COG1780, NrdI, Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]	NA|702aa|down_6|NZ_LT598688.1_784619_786725_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|324aa|down_7|NZ_LT598688.1_786842_787814_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|52aa|down_8|NZ_LT598688.1_788327_788483_+	NA	NA|324aa|down_9|NZ_LT598688.1_788521_789493_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	4	825013-825098	4	CRISPRCasFinder	no	cas3	cas3,DEDDh,DinG,csa3,WYL	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	5	825043-825068|825043-825068|825043-825068|825043-825068|825043-825068	NZ_LT598688.1_788005-787980|NZ_LT598688.1_1178577-1178552|NZ_LT598688.1_2836390-2836415|NZ_LT598688.1_788061-788036|NZ_LT598688.1_917197-917172	NA	1	1	Unclear	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|280aa|up_9|NZ_LT598688.1_812265_813105_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|217aa|up_8|NZ_LT598688.1_813278_813929_+	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|79aa|up_7|NZ_LT598688.1_813925_814162_+	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|662aa|up_6|NZ_LT598688.1_814430_816416_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|949aa|up_5|NZ_LT598688.1_816423_819270_+	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|311aa|up_4|NZ_LT598688.1_819931_820864_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|280aa|up_3|NZ_LT598688.1_820869_821709_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|162aa|up_2|NZ_LT598688.1_821716_822202_+	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_LT598688.1_822209_823649_+	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|312aa|up_0|NZ_LT598688.1_823715_824651_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|304aa|down_0|NZ_LT598688.1_825530_826442_+	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|332aa|down_1|NZ_LT598688.1_826438_827434_+	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|315aa|down_2|NZ_LT598688.1_827543_828488_+	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|196aa|down_3|NZ_LT598688.1_829060_829648_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|301aa|down_4|NZ_LT598688.1_829890_830793_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|210aa|down_5|NZ_LT598688.1_831496_832126_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|338aa|down_6|NZ_LT598688.1_832885_833899_+	COG2390, DeoR, Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]	NA|337aa|down_7|NZ_LT598688.1_833951_834962_+	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I	NA|397aa|down_8|NZ_LT598688.1_835100_836291_+	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|254aa|down_9|NZ_LT598688.1_836412_837174_+	PRK00042, tpiA, triosephosphate isomerase; Provisional
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	5	868343-868424	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CCCCAACTTGCATTGTCTGTAGAA	24	1	2	868367-868400|868367-868400	NZ_LT598688.1_1386743-1386710|NZ_LT598688.1_1475153-1475186	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|194aa|up_9|NZ_LT598688.1_861446_862028_+	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]	NA|206aa|up_8|NZ_LT598688.1_862100_862718_-	COG1279, COG1279, Lysine efflux permease [General function prediction only]	NA|165aa|up_7|NZ_LT598688.1_862872_863367_-	pfam13420, Acetyltransf_4, Acetyltransferase (GNAT) domain	NA|141aa|up_6|NZ_LT598688.1_863765_864188_-	TIGR03561, organ_hyd_perox, peroxiredoxin, Ohr subfamily	NA|239aa|up_5|NZ_LT598688.1_864335_865052_+	PRK13575, PRK13575, type I 3-dehydroquinate dehydratase	NA|180aa|up_4|NZ_LT598688.1_865134_865674_+	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA	NA|107aa|up_3|NZ_LT598688.1_865823_866144_-	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_2|NZ_LT598688.1_866287_866644_+	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_1|NZ_LT598688.1_866801_867182_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_0|NZ_LT598688.1_867360_868239_+	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|129aa|down_0|NZ_LT598688.1_868980_869367_+	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|99aa|down_1|NZ_LT598688.1_869359_869656_+	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_LT598688.1_869905_870931_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|232aa|down_3|NZ_LT598688.1_870923_871619_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|274aa|down_4|NZ_LT598688.1_871636_872458_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|65aa|down_5|NZ_LT598688.1_872811_873006_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|284aa|down_6|NZ_LT598688.1_873238_874090_-	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|254aa|down_7|NZ_LT598688.1_874417_875179_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|436aa|down_8|NZ_LT598688.1_875276_876584_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|417aa|down_9|NZ_LT598688.1_876689_877940_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	6	917198-917480	1	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	AAAGNCAGCTNNNNANANNNTGCAAGTTGG	30	2	6	917228-917253|917228-917253|917228-917253|917228-917253|917342-917367|917342-917367	NZ_LT598688.1_917172-917197|NZ_LT598688.1_787980-788005|NZ_LT598688.1_1178552-1178577|NZ_LT598688.1_2836415-2836390|NZ_LT598688.1_825124-825099|NZ_LT598688.1_384477-384502	NA	4	4	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NZ_LT598688.1_906086_907583_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|NZ_LT598688.1_907575_907917_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NZ_LT598688.1_907916_908345_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NZ_LT598688.1_908337_910743_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NZ_LT598688.1_910873_911257_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NZ_LT598688.1_911320_911914_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NZ_LT598688.1_912329_912707_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NZ_LT598688.1_913068_914196_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NZ_LT598688.1_914503_915694_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NZ_LT598688.1_915802_917047_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NZ_LT598688.1_917549_918479_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NZ_LT598688.1_918720_920100_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NZ_LT598688.1_920089_921295_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NZ_LT598688.1_921645_922977_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NZ_LT598688.1_923301_923877_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NZ_LT598688.1_923881_924406_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NZ_LT598688.1_924421_924997_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NZ_LT598688.1_925156_928633_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NZ_LT598688.1_928633_932287_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NZ_LT598688.1_932452_933355_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	7	1178382-1178568	2	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGCGGGGCCCCAACATAGA	19	3	29	1178401-1178437|1178401-1178437|1178401-1178437|1178401-1178437|1178401-1178437|1178401-1178437|1178401-1178437|1178401-1178437|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178457-1178493|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549|1178513-1178549	NZ_LT598688.1_1833208-1833244|NZ_LT598688.1_819617-819581|NZ_LT598688.1_819672-819636|NZ_LT598688.1_868440-868404|NZ_LT598688.1_1654524-1654488|NZ_LT598688.1_2043978-2043942|NZ_LT598688.1_2585398-2585434|NZ_LT598688.1_2836453-2836417|NZ_LT598688.1_384494-384530|NZ_LT598688.1_825107-825071|NZ_LT598688.1_1034619-1034583|NZ_LT598688.1_1386669-1386705|NZ_LT598688.1_1475227-1475191|NZ_LT598688.1_1654582-1654546|NZ_LT598688.1_2670954-2670918|NZ_LT598688.1_1174489-1174525|NZ_LT598688.1_1178569-1178605|NZ_LT598688.1_115385-115421|NZ_LT598688.1_661466-661502|NZ_LT598688.1_777562-777526|NZ_LT598688.1_778496-778532|NZ_LT598688.1_825163-825127|NZ_LT598688.1_1386727-1386763|NZ_LT598688.1_1475169-1475133|NZ_LT598688.1_2034628-2034592|NZ_LT598688.1_2034687-2034651|NZ_LT598688.1_1060753-1060717|NZ_LT598688.1_2560151-2560115|NZ_LT598688.1_1174545-1174581	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|31aa|up_9|NZ_LT598688.1_1171036_1171129_-,NA|169aa|up_7|NZ_LT598688.1_1172161_1172668_+,NA|62aa|up_4|NZ_LT598688.1_1174749_1174935_-,NA|78aa|up_3|NZ_LT598688.1_1175556_1175790_-,NA|49aa|up_1|NZ_LT598688.1_1177898_1178045_+,NA|75aa|up_0|NZ_LT598688.1_1178001_1178226_+,NA|76aa|down_6|NZ_LT598688.1_1185581_1185809_+	NA|31aa|up_9|NZ_LT598688.1_1171036_1171129_-	NA	NA|134aa|up_8|NZ_LT598688.1_1171088_1171490_-	PRK13033, PRK13033, formyl peptide receptor-like 1 inhibitory protein; Reviewed	NA|169aa|up_7|NZ_LT598688.1_1172161_1172668_+	NA	NA|166aa|up_6|NZ_LT598688.1_1172926_1173424_+	pfam12199, efb-c, Extracellular fibrinogen binding protein C terminal	NA|117aa|up_5|NZ_LT598688.1_1173577_1173928_+	pfam11546, CompInhib_SCIN, Staphylococcal complement inhibitor SCIN	NA|62aa|up_4|NZ_LT598688.1_1174749_1174935_-	NA	NA|78aa|up_3|NZ_LT598688.1_1175556_1175790_-	NA	NA|320aa|up_2|NZ_LT598688.1_1176266_1177226_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|49aa|up_1|NZ_LT598688.1_1177898_1178045_+	NA	NA|75aa|up_0|NZ_LT598688.1_1178001_1178226_+	NA	NA|239aa|down_0|NZ_LT598688.1_1178782_1179499_-	PRK13350, PRK13350, superantigen-like protein; Reviewed	NA|242aa|down_1|NZ_LT598688.1_1179606_1180332_-	PRK13349, PRK13349, superantigen-like protein; Reviewed	NA|242aa|down_2|NZ_LT598688.1_1180426_1181152_-	PRK13043, PRK13043, superantigen-like protein; Reviewed	NA|334aa|down_3|NZ_LT598688.1_1181589_1182591_+	PRK04284, PRK04284, ornithine carbamoyltransferase; Provisional	NA|311aa|down_4|NZ_LT598688.1_1182613_1183546_+	PRK12353, PRK12353, putative amino acid kinase; Reviewed	NA|519aa|down_5|NZ_LT598688.1_1183717_1185274_+	COG1288, COG1288, Predicted membrane protein [Function unknown]	NA|76aa|down_6|NZ_LT598688.1_1185581_1185809_+	NA	NA|316aa|down_7|NZ_LT598688.1_1186113_1187061_-	cd09325, TDT_C4-dicarb_trans, C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family	NA|63aa|down_8|NZ_LT598688.1_1187309_1187498_+	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]	NA|45aa|down_9|NZ_LT598688.1_1188409_1188544_+	pfam05480, Staph_haemo, Staphylococcus haemolytic protein
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	8	1833248-1833474	6	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	GGGCCCCAACACAGAAGCTGGCCAATAGTCAGCTTTCAATAATGTGCAAGTTGG	54	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|199aa|up_9|NZ_LT598688.1_1823803_1824400_-	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|286aa|up_8|NZ_LT598688.1_1824428_1825286_-	PRK13668, PRK13668, hypothetical protein; Provisional	NA|104aa|up_7|NZ_LT598688.1_1825385_1825697_-	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|359aa|up_6|NZ_LT598688.1_1825761_1826838_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|104aa|up_5|NZ_LT598688.1_1826924_1827236_+	COG5584, COG5584, Predicted small secreted protein [Function unknown]	NA|281aa|up_4|NZ_LT598688.1_1827360_1828203_-	cd07728, YtnP-like_MBL-fold, Bacillus subtilis YtnP and related proteins; MBL-fold metallo hydrolase domain	NA|215aa|up_3|NZ_LT598688.1_1828672_1829317_-	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed	NA|264aa|up_2|NZ_LT598688.1_1829331_1830123_-	COG0510, ycfN, Thiamine kinase and related kinases [Coenzyme transport and metabolism]	NA|283aa|up_1|NZ_LT598688.1_1830672_1831521_-	TIGR01121, D-alanine_aminotransferase, D-amino acid aminotransferase	NA|470aa|up_0|NZ_LT598688.1_1831524_1832934_-	PRK07318, PRK07318, dipeptidase PepV; Reviewed	NA|141aa|down_0|NZ_LT598688.1_1833853_1834276_-	pfam12732, YtxH, YtxH-like protein	NA|232aa|down_1|NZ_LT598688.1_1834292_1834988_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|554aa|down_2|NZ_LT598688.1_1834984_1836646_-	cd13124, MATE_SpoVB_like, Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins	NA|423aa|down_3|NZ_LT598688.1_1837052_1838321_+	pfam03486, HI0933_like, HI0933-like protein	NA|2187aa|down_4|NZ_LT598688.1_1838437_1844998_-	TIGR04263, cell_wall_surface_anchor_family_protein, SasC/Mrp/FmtB intercellular aggregation domain	NA|104aa|down_5|NZ_LT598688.1_1845323_1845635_-	cd00158, RHOD, Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein	NA|806aa|down_6|NZ_LT598688.1_1845656_1848074_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|394aa|down_7|NZ_LT598688.1_1848361_1849543_-	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|318aa|down_8|NZ_LT598688.1_1849652_1850606_+	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|188aa|down_9|NZ_LT598688.1_1850602_1851166_+	pfam06962, rRNA_methylase, Putative rRNA methylase
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	9	2033120-2033198	7	CRISPRCasFinder	no	DEDDh	cas3,DEDDh,DinG,csa3,WYL	Unclear	TGTTGGGGCCCCGCCAACCTGCA	23	1	5	2033143-2033175|2033143-2033175|2033143-2033175|2033143-2033175|2033143-2033175	NZ_LT598688.1_825079-825111|NZ_LT598688.1_1386697-1386665|NZ_LT598688.1_1654554-1654586|NZ_LT598688.1_2670926-2670958|NZ_LT598688.1_1475199-1475231	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|92aa|up_6|NZ_LT598688.1_2027314_2027590_+,NA|129aa|up_1|NZ_LT598688.1_2031575_2031962_-,NA|138aa|down_1|NZ_LT598688.1_2034940_2035354_-,NA|31aa|down_5|NZ_LT598688.1_2038499_2038592_-	NA|419aa|up_9|NZ_LT598688.1_2025237_2026494_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|up_8|NZ_LT598688.1_2026496_2026697_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|up_7|NZ_LT598688.1_2026843_2027308_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|up_6|NZ_LT598688.1_2027314_2027590_+	NA	NA|406aa|up_5|NZ_LT598688.1_2027867_2029085_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|210aa|up_4|NZ_LT598688.1_2029200_2029830_-	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_LT598688.1_2029819_2030863_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|up_2|NZ_LT598688.1_2030859_2031561_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|up_1|NZ_LT598688.1_2031575_2031962_-	NA	NA|253aa|up_0|NZ_LT598688.1_2032178_2032937_-	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|329aa|down_0|NZ_LT598688.1_2033464_2034451_+	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|138aa|down_1|NZ_LT598688.1_2034940_2035354_-	NA	NA|244aa|down_2|NZ_LT598688.1_2035579_2036311_-	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|438aa|down_3|NZ_LT598688.1_2036312_2037626_-	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|167aa|down_4|NZ_LT598688.1_2037917_2038418_+	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|31aa|down_5|NZ_LT598688.1_2038499_2038592_-	NA	DEDDh|185aa|down_6|NZ_LT598688.1_2038806_2039361_+	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_7|NZ_LT598688.1_2039428_2040499_-	PRK02406, PRK02406, DNA polymerase IV; Validated	NA|177aa|down_8|NZ_LT598688.1_2040745_2041276_-	pfam11667, DUF3267, Putative zincin peptidase	NA|454aa|down_9|NZ_LT598688.1_2041445_2042807_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	10	2269333-2269413	8	CRISPRCasFinder	no	csa3	cas3,DEDDh,DinG,csa3,WYL	Type I-A	TTACAACTTTAGTTGTTAGGGGCT	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_5|NZ_LT598688.1_2264208_2264439_-,NA|364aa|up_0|NZ_LT598688.1_2268227_2269319_+,NA|35aa|down_0|NZ_LT598688.1_2269752_2269857_-,NA|31aa|down_2|NZ_LT598688.1_2271968_2272061_+	NA|237aa|up_9|NZ_LT598688.1_2259818_2260529_+	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase	NA|148aa|up_8|NZ_LT598688.1_2260649_2261093_-	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|138aa|up_7|NZ_LT598688.1_2261292_2261706_-	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|458aa|up_6|NZ_LT598688.1_2262163_2263537_-	pfam01878, EVE, EVE domain	NA|77aa|up_5|NZ_LT598688.1_2264208_2264439_-	NA	NA|313aa|up_4|NZ_LT598688.1_2264469_2265408_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|222aa|up_3|NZ_LT598688.1_2265842_2266508_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	csa3|107aa|up_2|NZ_LT598688.1_2266659_2266980_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|327aa|up_1|NZ_LT598688.1_2266981_2267962_+	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	NA|364aa|up_0|NZ_LT598688.1_2268227_2269319_+	NA	NA|35aa|down_0|NZ_LT598688.1_2269752_2269857_-	NA	NA|379aa|down_1|NZ_LT598688.1_2270543_2271680_-	pfam02037, SAP, SAP domain	NA|31aa|down_2|NZ_LT598688.1_2271968_2272061_+	NA	NA|286aa|down_3|NZ_LT598688.1_2272765_2273623_-	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|261aa|down_4|NZ_LT598688.1_2273690_2274473_-	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|602aa|down_5|NZ_LT598688.1_2274704_2276510_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|513aa|down_6|NZ_LT598688.1_2277190_2278729_+	COG2213, MtlA, Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]	NA|711aa|down_7|NZ_LT598688.1_2278763_2280896_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_8|NZ_LT598688.1_2280907_2281342_+	COG4668, MtlA, Mannitol/fructose-specific phosphotransferase system, IIA domain [Carbohydrate transport and metabolism]	NA|369aa|down_9|NZ_LT598688.1_2281341_2282448_+	PRK02318, PRK02318, mannitol-1-phosphate 5-dehydrogenase; Provisional
GCF_900092595.1_Sa_Newman_UoM	NZ_LT598688	Staphylococcus aureus isolate Sa_Newman_UoM chromosome 1	11	2393433-2393626	3	CRT	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TGTTGGGGCCCCGCCAACTTGCA	23	3	10	2393456-2393488|2393456-2393488|2393456-2393488|2393456-2393488|2393512-2393547|2393512-2393547|2393512-2393547|2393571-2393603|2393571-2393603|2393571-2393603	NZ_LT598688.1_825079-825111|NZ_LT598688.1_1386697-1386665|NZ_LT598688.1_1475199-1475231|NZ_LT598688.1_2670926-2670958|NZ_LT598688.1_1833239-1833204|NZ_LT598688.1_1654493-1654528|NZ_LT598688.1_2043947-2043982|NZ_LT598688.1_825079-825111|NZ_LT598688.1_1386697-1386665|NZ_LT598688.1_2670926-2670958	NA	3	3	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|55aa|up_9|NZ_LT598688.1_2383960_2384125_+,NA|106aa|up_8|NZ_LT598688.1_2384369_2384687_+,NA|84aa|up_5|NZ_LT598688.1_2389811_2390063_+,NA|57aa|up_0|NZ_LT598688.1_2393202_2393373_+,NA	NA|55aa|up_9|NZ_LT598688.1_2383960_2384125_+	NA	NA|106aa|up_8|NZ_LT598688.1_2384369_2384687_+	NA	NA|1056aa|up_7|NZ_LT598688.1_2384873_2388041_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|422aa|up_6|NZ_LT598688.1_2388157_2389423_-	COG2348, COG2348, Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]	NA|84aa|up_5|NZ_LT598688.1_2389811_2390063_+	NA	NA|255aa|up_4|NZ_LT598688.1_2390054_2390819_-	pfam13468, Glyoxalase_3, Glyoxalase-like domain	NA|147aa|up_3|NZ_LT598688.1_2390980_2391421_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|404aa|up_2|NZ_LT598688.1_2391413_2392625_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|117aa|up_1|NZ_LT598688.1_2392726_2393077_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|57aa|up_0|NZ_LT598688.1_2393202_2393373_+	NA	NA|341aa|down_0|NZ_LT598688.1_2393767_2394790_-	TIGR02666, Cyclic_pyranopterin_monophosphate_synthase, molybdenum cofactor biosynthesis protein A, bacterial	NA|200aa|down_1|NZ_LT598688.1_2394809_2395409_-	PRK00317, mobA, molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed	NA|78aa|down_2|NZ_LT598688.1_2395415_2395649_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|149aa|down_3|NZ_LT598688.1_2395654_2396101_-	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|162aa|down_4|NZ_LT598688.1_2396114_2396600_-	COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]	NA|420aa|down_5|NZ_LT598688.1_2396596_2397856_-	cd00887, MoeA, MoeA family	NA|165aa|down_6|NZ_LT598688.1_2397918_2398413_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|169aa|down_7|NZ_LT598688.1_2398414_2398921_-	COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme metabolism]	NA|335aa|down_8|NZ_LT598688.1_2398951_2399956_-	PRK07688, PRK07688, thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated	NA|202aa|down_9|NZ_LT598688.1_2400125_2400731_-	COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
