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_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	1	787062-787142	1	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	GGGAGTGGGAGAGAAATGATAAAGA	25	1	1	787087-787117	NZ_LT992477.1_843421-843391	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|105aa|up_7|NZ_LT992477.1_779140_779455_+,NA	NA|356aa|up_9|NZ_LT992477.1_776650_777718_-	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]	NA|347aa|up_8|NZ_LT992477.1_777731_778772_-	COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]	NA|105aa|up_7|NZ_LT992477.1_779140_779455_+	NA	NA|466aa|up_6|NZ_LT992477.1_779786_781184_-	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|155aa|up_5|NZ_LT992477.1_781334_781799_-	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family	NA|417aa|up_4|NZ_LT992477.1_781788_783039_-	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|436aa|up_3|NZ_LT992477.1_783144_784452_-	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|254aa|up_2|NZ_LT992477.1_784550_785312_-	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|284aa|up_1|NZ_LT992477.1_785639_786491_+	COG2035, COG2035, Predicted membrane protein [Function unknown]	NA|65aa|up_0|NZ_LT992477.1_786724_786919_-	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|274aa|down_0|NZ_LT992477.1_787726_788548_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|232aa|down_1|NZ_LT992477.1_788565_789261_-	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|342aa|down_2|NZ_LT992477.1_789253_790279_-	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|99aa|down_3|NZ_LT992477.1_790528_790825_-	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|129aa|down_4|NZ_LT992477.1_790817_791204_-	COG1658, COG1658, Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]	NA|293aa|down_5|NZ_LT992477.1_791905_792784_-	COG3878, COG3878, Uncharacterized protein conserved in bacteria [Function unknown]	NA|127aa|down_6|NZ_LT992477.1_792963_793344_-	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|119aa|down_7|NZ_LT992477.1_793501_793858_-	cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC	NA|107aa|down_8|NZ_LT992477.1_794001_794322_+	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|180aa|down_9|NZ_LT992477.1_794471_795011_-	cd02135, YdjA-like, nitroreductase family protein similar to Escherichia coli YdjA
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	2	1001079-1001187	2	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TTTATGCAGTTGTGCGGTAGCATCCAACTGCGTTCCTTT	39	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|239aa|up_5|NZ_LT992477.1_995960_996677_-,NA|169aa|up_4|NZ_LT992477.1_996838_997345_-,NA	NA|75aa|up_9|NZ_LT992477.1_992083_992308_+	pfam11148, DUF2922, Protein of unknown function (DUF2922)	NA|310aa|up_8|NZ_LT992477.1_992500_993430_+	COG3238, COG3238, Uncharacterized protein conserved in bacteria [Function unknown]	NA|125aa|up_7|NZ_LT992477.1_994377_994752_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|263aa|up_6|NZ_LT992477.1_995003_995792_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|239aa|up_5|NZ_LT992477.1_995960_996677_-	NA	NA|169aa|up_4|NZ_LT992477.1_996838_997345_-	NA	NA|267aa|up_3|NZ_LT992477.1_997480_998281_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|240aa|up_2|NZ_LT992477.1_998264_998984_-	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|317aa|up_1|NZ_LT992477.1_999038_999989_-	pfam01032, FecCD, FecCD transport family	NA|296aa|up_0|NZ_LT992477.1_1000139_1001027_-	cd01143, YvrC, Periplasmic binding protein YvrC	NA|212aa|down_0|NZ_LT992477.1_1001356_1001992_-	COG2231, COG2231, Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]	NA|554aa|down_1|NZ_LT992477.1_1002476_1004138_-	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|139aa|down_2|NZ_LT992477.1_1004134_1004551_-	COG4506, COG4506, Uncharacterized protein conserved in bacteria [Function unknown]	NA|337aa|down_3|NZ_LT992477.1_1004826_1005837_-	PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional	NA|174aa|down_4|NZ_LT992477.1_1006335_1006857_-	pfam08741, YwhD, YwhD family	NA|432aa|down_5|NZ_LT992477.1_1006884_1008180_-	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|159aa|down_6|NZ_LT992477.1_1008219_1008696_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|179aa|down_7|NZ_LT992477.1_1008865_1009402_-	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|313aa|down_8|NZ_LT992477.1_1009847_1010786_-	cd19083, AKR_AKR11A1_11D1, AKR11A and  AKR11D families of aldo-keto reductase (AKR)	NA|209aa|down_9|NZ_LT992477.1_1011055_1011682_-	pfam04276, DUF443, Protein of unknown function (DUF443)
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	3	1943155-1943288	1	PILER-CR	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TATTGAAGAAGATACAA	17	0	0	NA	NA	NA	2	2	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA,NA|103aa|down_1|NZ_LT992477.1_1948422_1948731_-,NA|89aa|down_2|NZ_LT992477.1_1948874_1949141_-	NA|388aa|up_9|NZ_LT992477.1_1927469_1928633_+	cd17474, MFS_YfmO_like, Bacillus subtilis multidrug efflux protein YfmO and similar transporters of the Major Facilitator Superfamily	NA|204aa|up_8|NZ_LT992477.1_1928730_1929342_-	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|426aa|up_7|NZ_LT992477.1_1929888_1931166_+	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|608aa|up_6|NZ_LT992477.1_1932076_1933900_+	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|139aa|up_5|NZ_LT992477.1_1934038_1934455_+	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|231aa|up_4|NZ_LT992477.1_1934685_1935378_+	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|255aa|up_3|NZ_LT992477.1_1935542_1936307_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|226aa|up_2|NZ_LT992477.1_1936463_1937141_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|518aa|up_1|NZ_LT992477.1_1937165_1938719_+	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|453aa|up_0|NZ_LT992477.1_1938835_1940194_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|289aa|down_0|NZ_LT992477.1_1947430_1948297_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|103aa|down_1|NZ_LT992477.1_1948422_1948731_-	NA	NA|89aa|down_2|NZ_LT992477.1_1948874_1949141_-	NA	NA|584aa|down_3|NZ_LT992477.1_1949424_1951176_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|398aa|down_4|NZ_LT992477.1_1951251_1952445_-	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|310aa|down_5|NZ_LT992477.1_1952540_1953470_+	pfam09019, EcoRII-C, EcoRII C terminal	NA|258aa|down_6|NZ_LT992477.1_1953712_1954486_+	pfam04507, DUF576, Csa1 family	NA|255aa|down_7|NZ_LT992477.1_1954597_1955362_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_8|NZ_LT992477.1_1955609_1956395_+	pfam04507, DUF576, Csa1 family	NA|452aa|down_9|NZ_LT992477.1_1956391_1957747_+	cd00519, Lipase_3, Lipase (class 3)
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	4	1946699-1946832	2	PILER-CR	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TATTGAAGAAGATACAA	17	0	0	NA	NA	NA	2	2	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA,NA|103aa|down_1|NZ_LT992477.1_1948422_1948731_-,NA|89aa|down_2|NZ_LT992477.1_1948874_1949141_-	NA|204aa|up_9|NZ_LT992477.1_1928730_1929342_-	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|426aa|up_8|NZ_LT992477.1_1929888_1931166_+	cd17319, MFS_ExuT_GudP_like, Hexuronate transporter, Glucarate transporter, and similar transporters of the Major Facilitator Superfamily	NA|608aa|up_7|NZ_LT992477.1_1932076_1933900_+	COG1289, COG1289, Predicted membrane protein [Function unknown]	NA|139aa|up_6|NZ_LT992477.1_1934038_1934455_+	COG4876, COG4876, Uncharacterized protein conserved in bacteria [Function unknown]	NA|231aa|up_5|NZ_LT992477.1_1934685_1935378_+	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|255aa|up_4|NZ_LT992477.1_1935542_1936307_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|226aa|up_3|NZ_LT992477.1_1936463_1937141_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|518aa|up_2|NZ_LT992477.1_1937165_1938719_+	TIGR01314, gntK_FGGY, gluconate kinase, FGGY type	NA|453aa|up_1|NZ_LT992477.1_1938835_1940194_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|1018aa|up_0|NZ_LT992477.1_1940662_1943716_+	pfam10425, SdrG_C_C, C-terminus of bacterial fibrinogen-binding adhesin	NA|289aa|down_0|NZ_LT992477.1_1947430_1948297_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|103aa|down_1|NZ_LT992477.1_1948422_1948731_-	NA	NA|89aa|down_2|NZ_LT992477.1_1948874_1949141_-	NA	NA|584aa|down_3|NZ_LT992477.1_1949424_1951176_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|398aa|down_4|NZ_LT992477.1_1951251_1952445_-	TIGR00675, Modification_methylase, DNA-methyltransferase (dcm)	NA|310aa|down_5|NZ_LT992477.1_1952540_1953470_+	pfam09019, EcoRII-C, EcoRII C terminal	NA|258aa|down_6|NZ_LT992477.1_1953712_1954486_+	pfam04507, DUF576, Csa1 family	NA|255aa|down_7|NZ_LT992477.1_1954597_1955362_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_8|NZ_LT992477.1_1955609_1956395_+	pfam04507, DUF576, Csa1 family	NA|452aa|down_9|NZ_LT992477.1_1956391_1957747_+	cd00519, Lipase_3, Lipase (class 3)
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	5	1971296-1971390	3	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TTGCTTCGCAACAACTGCATAAGAGCCT	28	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|105aa|up_8|NZ_LT992477.1_1963137_1963452_-,NA|121aa|up_0|NZ_LT992477.1_1970264_1970627_+,NA|249aa|down_9|NZ_LT992477.1_1981057_1981804_-	NA|140aa|up_9|NZ_LT992477.1_1960841_1961261_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|105aa|up_8|NZ_LT992477.1_1963137_1963452_-	NA	NA|403aa|up_7|NZ_LT992477.1_1963457_1964666_-	cd07657, F-BAR_Fes_Fer, The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases	NA|128aa|up_6|NZ_LT992477.1_1964732_1965116_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|137aa|up_5|NZ_LT992477.1_1965570_1965981_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|133aa|up_4|NZ_LT992477.1_1966007_1966406_+	pfam07252, DUF1433, Protein of unknown function (DUF1433)	NA|141aa|up_3|NZ_LT992477.1_1966877_1967300_+	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|513aa|up_2|NZ_LT992477.1_1967411_1968950_-	pfam03806, ABG_transport, AbgT putative transporter family	NA|273aa|up_1|NZ_LT992477.1_1969183_1970002_+	PRK08589, PRK08589, SDR family oxidoreductase	NA|121aa|up_0|NZ_LT992477.1_1970264_1970627_+	NA	NA|274aa|down_0|NZ_LT992477.1_1971575_1972397_+	COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism]	NA|273aa|down_1|NZ_LT992477.1_1972407_1973226_+	cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family	NA|434aa|down_2|NZ_LT992477.1_1973218_1974520_+	COG4408, COG4408, Uncharacterized protein conserved in bacteria [Function unknown]	NA|533aa|down_3|NZ_LT992477.1_1974662_1976261_+	TIGR02294, Nickel-binding_periplasmic_protein, nickel ABC transporter, nickel/metallophore periplasmic binding protein	NA|312aa|down_4|NZ_LT992477.1_1976273_1977209_+	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|290aa|down_5|NZ_LT992477.1_1977205_1978075_+	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|272aa|down_6|NZ_LT992477.1_1978071_1978887_+	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|250aa|down_7|NZ_LT992477.1_1978879_1979629_+	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|398aa|down_8|NZ_LT992477.1_1979640_1980834_+	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|249aa|down_9|NZ_LT992477.1_1981057_1981804_-	NA
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	6	2015644-2015722	4	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TGCAAGTTGGCGGGGCCCCAACA	23	1	1	2015667-2015699	NZ_LT992477.1_1418014-1417982	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|220aa|up_3|NZ_LT992477.1_2012568_2013228_-,NA|36aa|up_0|NZ_LT992477.1_2015216_2015324_+,NA|56aa|down_2|NZ_LT992477.1_2019779_2019947_+	NA|693aa|up_9|NZ_LT992477.1_2005023_2007102_-	COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]	NA|470aa|up_8|NZ_LT992477.1_2007239_2008649_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|269aa|up_7|NZ_LT992477.1_2008935_2009742_+	TIGR03729, acc_ester, putative phosphoesterase	NA|219aa|up_6|NZ_LT992477.1_2009804_2010461_-	COG4990, COG4990, Uncharacterized protein conserved in bacteria [Function unknown]	NA|158aa|up_5|NZ_LT992477.1_2010573_2011047_+	COG3708, COG3708, Uncharacterized protein conserved in bacteria [Function unknown]	NA|404aa|up_4|NZ_LT992477.1_2011169_2012381_-	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|220aa|up_3|NZ_LT992477.1_2012568_2013228_-	NA	NA|381aa|up_2|NZ_LT992477.1_2013287_2014430_-	TIGR00045, Glycerate_kinase, glycerate kinase	NA|129aa|up_1|NZ_LT992477.1_2014696_2015083_+	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|36aa|up_0|NZ_LT992477.1_2015216_2015324_+	NA	NA|588aa|down_0|NZ_LT992477.1_2016027_2017791_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|578aa|down_1|NZ_LT992477.1_2017815_2019549_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|56aa|down_2|NZ_LT992477.1_2019779_2019947_+	NA	NA|229aa|down_3|NZ_LT992477.1_2020001_2020688_+	COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism]	NA|453aa|down_4|NZ_LT992477.1_2020665_2022024_+	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase	NA|336aa|down_5|NZ_LT992477.1_2022025_2023033_+	PRK06256, PRK06256, biotin synthase; Validated	NA|372aa|down_6|NZ_LT992477.1_2023010_2024126_+	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|231aa|down_7|NZ_LT992477.1_2024136_2024829_+	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|156aa|down_8|NZ_LT992477.1_2024839_2025307_+	pfam06177, QueT, QueT transporter	NA|326aa|down_9|NZ_LT992477.1_2025358_2026336_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	7	2031021-2031115	5	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	GCCTTTCTAACAAATAAATTTGAAGAA	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|40aa|up_0|NZ_LT992477.1_2030722_2030842_+,NA|35aa|down_2|NZ_LT992477.1_2033289_2033394_-	NA|453aa|up_9|NZ_LT992477.1_2020665_2022024_+	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase	NA|336aa|up_8|NZ_LT992477.1_2022025_2023033_+	PRK06256, PRK06256, biotin synthase; Validated	NA|372aa|up_7|NZ_LT992477.1_2023010_2024126_+	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|231aa|up_6|NZ_LT992477.1_2024136_2024829_+	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|156aa|up_5|NZ_LT992477.1_2024839_2025307_+	pfam06177, QueT, QueT transporter	NA|326aa|up_4|NZ_LT992477.1_2025358_2026336_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|316aa|up_3|NZ_LT992477.1_2026337_2027285_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|310aa|up_2|NZ_LT992477.1_2027852_2028782_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|437aa|up_1|NZ_LT992477.1_2029317_2030628_-	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|40aa|up_0|NZ_LT992477.1_2030722_2030842_+	NA	NA|289aa|down_0|NZ_LT992477.1_2031256_2032123_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|229aa|down_1|NZ_LT992477.1_2032449_2033136_+	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|35aa|down_2|NZ_LT992477.1_2033289_2033394_-	NA	NA|480aa|down_3|NZ_LT992477.1_2033567_2035007_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|260aa|down_4|NZ_LT992477.1_2035127_2035907_+	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|240aa|down_5|NZ_LT992477.1_2035887_2036607_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|244aa|down_6|NZ_LT992477.1_2036603_2037335_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|417aa|down_7|NZ_LT992477.1_2037431_2038682_-	pfam02388, FemAB, FemAB family	NA|121aa|down_8|NZ_LT992477.1_2038936_2039299_+	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|200aa|down_9|NZ_LT992477.1_2039317_2039917_+	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	8	2147447-2147532	6	CRISPRCasFinder	no	WYL	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Unclear	CCAACTTGCACATTATTGTAAGCTGACTTT	30	1	6	2147477-2147502|2147477-2147502|2147477-2147502|2147477-2147502|2147477-2147502|2147477-2147502	NZ_LT992477.1_25844-25819|NZ_LT992477.1_791485-791460|NZ_LT992477.1_300131-300156|NZ_LT992477.1_742380-742405|NZ_LT992477.1_787315-787340|NZ_LT992477.1_2356066-2356091	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|110aa|up_8|NZ_LT992477.1_2137844_2138174_-,NA|78aa|up_1|NZ_LT992477.1_2146262_2146496_+,NA|65aa|down_6|NZ_LT992477.1_2154592_2154787_+	NA|291aa|up_9|NZ_LT992477.1_2136527_2137400_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|110aa|up_8|NZ_LT992477.1_2137844_2138174_-	NA	NA|246aa|up_7|NZ_LT992477.1_2138222_2138960_+	pfam02517, Abi, CAAX protease self-immunity	WYL|231aa|up_6|NZ_LT992477.1_2138984_2139677_-	COG2378, COG2378, Predicted transcriptional regulator [Transcription]	NA|266aa|up_5|NZ_LT992477.1_2140061_2140859_+	COG0483, SuhB, Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]	NA|316aa|up_4|NZ_LT992477.1_2140991_2141939_+	PRK09379, PRK09379, LytR family transcriptional regulator	NA|985aa|up_3|NZ_LT992477.1_2142540_2145495_+	COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General function prediction only]	NA|158aa|up_2|NZ_LT992477.1_2145494_2145968_+	COG2427, COG2427, Uncharacterized conserved protein [Function unknown]	NA|78aa|up_1|NZ_LT992477.1_2146262_2146496_+	NA	NA|259aa|up_0|NZ_LT992477.1_2146517_2147294_+	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|375aa|down_0|NZ_LT992477.1_2147902_2149027_+	PRK06753, PRK06753, hypothetical protein; Provisional	NA|318aa|down_1|NZ_LT992477.1_2149118_2150072_-	cd12178, 2-Hacid_dh_13, Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains	NA|167aa|down_2|NZ_LT992477.1_2150434_2150935_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|141aa|down_3|NZ_LT992477.1_2151171_2151594_-	COG3296, COG3296, Uncharacterized protein conserved in bacteria [Function unknown]	NA|361aa|down_4|NZ_LT992477.1_2151841_2152924_+	pfam02317, Octopine_DH, NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain	NA|467aa|down_5|NZ_LT992477.1_2153018_2154419_+	TIGR00931, Uncharacterized_Na+/H+_antiporter_HI_1107, Na+/H+ antiporter NhaC	NA|65aa|down_6|NZ_LT992477.1_2154592_2154787_+	NA	NA|270aa|down_7|NZ_LT992477.1_2154855_2155665_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|652aa|down_8|NZ_LT992477.1_2156273_2158229_+	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|248aa|down_9|NZ_LT992477.1_2158254_2158998_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	9	2311422-2311572	7	CRISPRCasFinder	no	TnsE_C,csa3	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Type I-A	TGCATAAGAGCCCCTTACAACTAAAGTT	28	0	0	NA	NA	NA	2	2	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|31aa|up_2|NZ_LT992477.1_2309621_2309714_-,NA|53aa|up_1|NZ_LT992477.1_2310149_2310308_-,NA|35aa|up_0|NZ_LT992477.1_2310987_2311092_+,NA|364aa|down_0|NZ_LT992477.1_2311589_2312681_-,NA|77aa|down_5|NZ_LT992477.1_2316468_2316699_+	TnsE_C|135aa|up_9|NZ_LT992477.1_2303382_2303787_+	pfam18623, TnsE_C, TnsE C-terminal domain	NA|97aa|up_8|NZ_LT992477.1_2303911_2304202_+	pfam11867, DUF3387, Domain of unknown function (DUF3387)	NA|490aa|up_7|NZ_LT992477.1_2304261_2305731_+	pfam18185, STALD, Sir2- and TIR-associating SLOG family	NA|345aa|up_6|NZ_LT992477.1_2305824_2306859_+	pfam13676, TIR_2, TIR domain	NA|203aa|up_5|NZ_LT992477.1_2306886_2307495_+	pfam08937, DUF1863, MTH538 TIR-like domain (DUF1863)	NA|261aa|up_4|NZ_LT992477.1_2307784_2308567_+	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]	NA|286aa|up_3|NZ_LT992477.1_2308634_2309492_+	COG0561, Cof, Predicted hydrolases of the HAD superfamily [General function prediction only]	NA|31aa|up_2|NZ_LT992477.1_2309621_2309714_-	NA	NA|53aa|up_1|NZ_LT992477.1_2310149_2310308_-	NA	NA|35aa|up_0|NZ_LT992477.1_2310987_2311092_+	NA	NA|364aa|down_0|NZ_LT992477.1_2311589_2312681_-	NA	NA|327aa|down_1|NZ_LT992477.1_2312946_2313927_-	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]	csa3|107aa|down_2|NZ_LT992477.1_2313928_2314249_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|222aa|down_3|NZ_LT992477.1_2314400_2315066_+	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	NA|313aa|down_4|NZ_LT992477.1_2315499_2316438_+	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|77aa|down_5|NZ_LT992477.1_2316468_2316699_+	NA	NA|458aa|down_6|NZ_LT992477.1_2317370_2318744_+	pfam01878, EVE, EVE domain	NA|138aa|down_7|NZ_LT992477.1_2319201_2319615_+	COG3011, COG3011, Predicted thiol-disulfide oxidoreductase [General function    prediction only]	NA|148aa|down_8|NZ_LT992477.1_2319814_2320258_+	COG0783, Dps, DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]	NA|237aa|down_9|NZ_LT992477.1_2320378_2321089_-	PRK05819, deoD, DeoD-type purine-nucleoside phosphorylase
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	10	2366991-2367203	8	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	CATCAAAGTAGCATGGCATGACACCAAGCTTCCACAACAGCACATCA	47	0	0	NA	NA	NA	2	2	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA|107aa|up_0|NZ_LT992477.1_2366636_2366957_-,NA|46aa|down_4|NZ_LT992477.1_2370203_2370341_+	NA|147aa|up_9|NZ_LT992477.1_2358109_2358550_+	PRK00006, fabZ, 3-hydroxyacyl-ACP dehydratase FabZ	NA|147aa|up_8|NZ_LT992477.1_2358606_2359047_-	pfam14183, YwpF, YwpF-like protein	NA|132aa|up_7|NZ_LT992477.1_2359240_2359636_+	pfam00436, SSB, Single-strand binding protein family	NA|232aa|up_6|NZ_LT992477.1_2360024_2360720_+	pfam06737, Transglycosylas, Transglycosylase-like domain	NA|230aa|up_5|NZ_LT992477.1_2361106_2361796_+	TIGR04306, salvage_TenA, thiaminase II	NA|277aa|up_4|NZ_LT992477.1_2361788_2362619_+	PRK06427, PRK06427, bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed	NA|264aa|up_3|NZ_LT992477.1_2362602_2363394_+	PRK09355, PRK09355, hydroxyethylthiazole kinase; Validated	NA|214aa|up_2|NZ_LT992477.1_2363395_2364037_+	PRK00043, thiE, thiamine phosphate synthase	NA|291aa|up_1|NZ_LT992477.1_2364122_2364995_+	PRK02463, PRK02463, OxaA-like protein precursor; Provisional	NA|107aa|up_0|NZ_LT992477.1_2366636_2366957_-	NA	NA|216aa|down_0|NZ_LT992477.1_2367236_2367884_-	COG1418, COG1418, Predicted HD superfamily hydrolase [General function prediction only]	NA|495aa|down_1|NZ_LT992477.1_2367911_2369396_-	TIGR04265, bac_cardiolipin, cardiolipin synthase	NA|98aa|down_2|NZ_LT992477.1_2369561_2369855_+	cd10152, SaCsoR-like_DUF156, Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156	NA|70aa|down_3|NZ_LT992477.1_2369866_2370076_+	cd00371, HMA, Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones	NA|46aa|down_4|NZ_LT992477.1_2370203_2370341_+	NA	NA|401aa|down_5|NZ_LT992477.1_2370604_2371807_-	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|357aa|down_6|NZ_LT992477.1_2372124_2373195_+	PRK01966, ddl, D-alanine--D-alanine ligase	NA|452aa|down_7|NZ_LT992477.1_2373209_2374565_+	COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]	NA|507aa|down_8|NZ_LT992477.1_2375080_2376601_+	COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	NA|232aa|down_9|NZ_LT992477.1_2376953_2377649_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCF_900324415.1_22_LA_562	NZ_LT992477	Staphylococcus aureus isolate 22_LA_562 chromosome I	11	2744292-2744376	9	CRISPRCasFinder	no		cas3,DinG,DEDDh,WYL,TnsE_C,csa3	Orphan	TGTAAGCTGACTTTTTCGTCAGCTTCT	27	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,WYL,TnsE_C,csa3	NA,NA	NA|383aa|up_9|NZ_LT992477.1_2733816_2734965_+	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]	NA|408aa|up_8|NZ_LT992477.1_2734964_2736188_+	PRK01565, PRK01565, thiamine biosynthesis protein ThiI; Provisional	NA|257aa|up_7|NZ_LT992477.1_2736231_2737002_+	PRK10621, PRK10621, hypothetical protein; Provisional	NA|165aa|up_6|NZ_LT992477.1_2737099_2737594_+	PRK00522, tpx, thiol peroxidase	NA|316aa|up_5|NZ_LT992477.1_2737716_2738664_+	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|401aa|up_4|NZ_LT992477.1_2738751_2739954_+	PRK00180, PRK00180, acetate kinase A/propionate kinase 2; Reviewed	NA|167aa|up_3|NZ_LT992477.1_2740200_2740701_-	pfam00582, Usp, Universal stress protein family	NA|373aa|up_2|NZ_LT992477.1_2740841_2741960_+	cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic domains	NA|352aa|up_1|NZ_LT992477.1_2742275_2743331_-	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|230aa|up_0|NZ_LT992477.1_2743505_2744195_+	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|138aa|down_0|NZ_LT992477.1_2744584_2744998_-	pfam00582, Usp, Universal stress protein family	NA|433aa|down_1|NZ_LT992477.1_2745202_2746501_+	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|314aa|down_2|NZ_LT992477.1_2746870_2747812_+	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|1066aa|down_3|NZ_LT992477.1_2747832_2751030_+	COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]	NA|410aa|down_4|NZ_LT992477.1_2751478_2752708_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|286aa|down_5|NZ_LT992477.1_2752902_2753760_+	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|315aa|down_6|NZ_LT992477.1_2753759_2754704_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|323aa|down_7|NZ_LT992477.1_2754972_2755941_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|586aa|down_8|NZ_LT992477.1_2755962_2757720_+	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|454aa|down_9|NZ_LT992477.1_2758063_2759425_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]
