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
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	1	291598-291689	1	CRISPRCasFinder	no		DEDDh,cas3,WYL,csa3,DinG	Orphan	CCTCTTTGATTTTTAATCATTAGA	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,WYL,csa3,DinG	NA|32aa|up_5|CP016856.2_284721_284817_+,NA|43aa|down_0|CP016856.2_291860_291989_-,NA|36aa|down_4|CP016856.2_296860_296968_-,NA|359aa|down_9|CP016856.2_299995_301072_-	NA|272aa|up_9|CP016856.2_279203_280019_-	PRK08640, sdhB, succinate dehydrogenase iron-sulfur subunit; Reviewed	NA|589aa|up_8|CP016856.2_280018_281785_-	PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit; Reviewed	NA|205aa|up_7|CP016856.2_281836_282451_-	cd03497, SQR_TypeB_1_TM, Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR	NA|594aa|up_6|CP016856.2_282774_284556_-	PRK00558, uvrC, excinuclease ABC subunit UvrC	NA|32aa|up_5|CP016856.2_284721_284817_+	NA	NA|105aa|up_4|CP016856.2_284879_285194_-	TIGR01068, Thioredoxin-like_protein_slr0233, thioredoxin	NA|783aa|up_3|CP016856.2_285366_287715_-	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|571aa|up_2|CP016856.2_287724_289437_-	PRK08609, PRK08609, DNA polymerase/3'-5' exonuclease PolX	NA|174aa|up_1|CP016856.2_289509_290031_-	COG1286, CvpA, Uncharacterized membrane protein, required for colicin V production [General function prediction only]	NA|89aa|up_0|CP016856.2_290031_290298_-	PRK14126, PRK14126, cell division protein ZapA; Provisional	NA|43aa|down_0|CP016856.2_291860_291989_-	NA	NA|801aa|down_1|CP016856.2_292040_294443_-	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|353aa|down_2|CP016856.2_294442_295501_-	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated	NA|247aa|down_3|CP016856.2_295880_296621_-	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|36aa|down_4|CP016856.2_296860_296968_-	NA	NA|108aa|down_5|CP016856.2_297004_297328_-	PRK13312, PRK13312, staphylobilin-forming heme oxygenase IsdG	NA|245aa|down_6|CP016856.2_297346_298081_-	COG4509, COG4509, Uncharacterized protein conserved in bacteria [Function unknown]	NA|323aa|down_7|CP016856.2_298142_299111_-	COG0609, FepD, ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]	NA|293aa|down_8|CP016856.2_299120_299999_-	TIGR03659, heme_ABC_transporter_heme-binding_protein_isdE, heme ABC transporter, heme-binding protein isdE	NA|359aa|down_9|CP016856.2_299995_301072_-	NA
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	2	500113-500191	2	CRISPRCasFinder	no		DEDDh,cas3,WYL,csa3,DinG	Orphan	CCAGCCTCTGTGTTGGGGCCCCG	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,WYL,csa3,DinG	NA,NA	NA|301aa|up_9|CP016856.2_484060_484963_-	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|1218aa|up_8|CP016856.2_485128_488782_-	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|1159aa|up_7|CP016856.2_488782_492259_-	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|192aa|up_6|CP016856.2_492418_492994_-	TIGR02227, Inactive_signal_peptidase_IA	NA|175aa|up_5|CP016856.2_493009_493534_-	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|up_4|CP016856.2_493538_494114_-	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|444aa|up_3|CP016856.2_494438_495770_-	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|402aa|up_2|CP016856.2_496119_497325_+	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|460aa|up_1|CP016856.2_497314_498694_+	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|310aa|up_0|CP016856.2_498935_499865_+	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|415aa|down_0|CP016856.2_500315_501560_-	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|397aa|down_1|CP016856.2_501668_502859_-	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|376aa|down_2|CP016856.2_503166_504294_-	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|126aa|down_3|CP016856.2_504655_505033_-	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|198aa|down_4|CP016856.2_505447_506041_-	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|128aa|down_5|CP016856.2_506104_506488_+	pfam08810, KapB, Kinase associated protein B	NA|802aa|down_6|CP016856.2_506618_509024_+	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|143aa|down_7|CP016856.2_509016_509445_+	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|110aa|down_8|CP016856.2_509456_509786_+	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|499aa|down_9|CP016856.2_509778_511275_+	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	3	596515-596592	3	CRISPRCasFinder	no	cas3	DEDDh,cas3,WYL,csa3,DinG	Unclear	TGGCGGGGCCCCAACATAAAGAA	23	1	9	596538-596569|596538-596569|596538-596569|596538-596569|596538-596569|596538-596569|596538-596569|596538-596569|596538-596569	CP016856.2_1049801-1049770|CP016856.2_1049856-1049825|CP016856.2_2364310-2364279|CP016856.2_590987-591018|CP016856.2_761411-761380|CP016856.2_1253928-1253897|CP016856.2_1535829-1535798|CP016856.2_1857411-1857442|CP016856.2_2203182-2203213	NA	1	1	Unclear	DEDDh,cas3,WYL,csa3,DinG	NA|121aa|up_5|CP016856.2_590873_591236_+,NA|36aa|down_5|CP016856.2_604032_604140_-,NA|35aa|down_7|CP016856.2_605572_605677_-	NA|196aa|up_9|CP016856.2_586563_587151_-	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|315aa|up_8|CP016856.2_587714_588659_-	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|332aa|up_7|CP016856.2_588769_589765_-	TIGR01826, Putative_gluconeogenesis_factor, conserved hypothetical protein, cofD-related	NA|304aa|up_6|CP016856.2_589761_590673_-	COG1660, COG1660, Predicted P-loop-containing kinase [General function prediction only]	NA|121aa|up_5|CP016856.2_590873_591236_+	NA	NA|312aa|up_4|CP016856.2_591555_592491_-	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|480aa|up_3|CP016856.2_592557_593997_-	sd00008, TPR_YbbN, C-terminal Tetratricopeptide repeat (TPR) region of YbbN and similar motifs	NA|162aa|up_2|CP016856.2_594004_594490_-	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins	NA|280aa|up_1|CP016856.2_594497_595337_-	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|311aa|up_0|CP016856.2_595342_596275_-	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|949aa|down_0|CP016856.2_596880_599727_-	PRK00349, uvrA, excinuclease ABC subunit UvrA	NA|662aa|down_1|CP016856.2_599734_601720_-	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|79aa|down_2|CP016856.2_601988_602225_-	COG4897, CsbA, Uncharacterized protein conserved in bacteria [Function unknown]	NA|217aa|down_3|CP016856.2_602221_602872_-	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|280aa|down_4|CP016856.2_603045_603885_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|36aa|down_5|CP016856.2_604032_604140_-	NA	NA|370aa|down_6|CP016856.2_604293_605404_-	PRK00578, prfB, peptide chain release factor 2; Validated	NA|35aa|down_7|CP016856.2_605572_605677_-	NA	NA|844aa|down_8|CP016856.2_605718_608250_-	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|191aa|down_9|CP016856.2_608663_609236_-	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	4	1009824-1009926	4	CRISPRCasFinder	no		DEDDh,cas3,WYL,csa3,DinG	Orphan	CAAATTTAATACTCAATTCATATA	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,WYL,csa3,DinG	NA|131aa|up_9|CP016856.2_999286_999679_+,NA|61aa|up_8|CP016856.2_999844_1000027_-,NA|221aa|up_1|CP016856.2_1008070_1008733_+,NA|86aa|down_0|CP016856.2_1010133_1010391_+,NA|33aa|down_1|CP016856.2_1010601_1010700_-,NA|93aa|down_6|CP016856.2_1017063_1017342_+,NA|128aa|down_8|CP016856.2_1018296_1018680_+	NA|131aa|up_9|CP016856.2_999286_999679_+	NA	NA|61aa|up_8|CP016856.2_999844_1000027_-	NA	NA|369aa|up_7|CP016856.2_1000473_1001580_-	pfam07751, Abi_2, Abi-like protein	NA|514aa|up_6|CP016856.2_1002091_1003633_-	PRK00074, guaA, GMP synthase; Reviewed	NA|489aa|up_5|CP016856.2_1003657_1005124_-	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|423aa|up_4|CP016856.2_1005161_1006430_-	TIGR03173, pbuX, xanthine permease	NA|193aa|up_3|CP016856.2_1006429_1007008_-	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|136aa|up_2|CP016856.2_1007520_1007928_+	pfam11181, YflT, Heat induced stress protein YflT	NA|221aa|up_1|CP016856.2_1008070_1008733_+	NA	NA|319aa|up_0|CP016856.2_1008850_1009807_+	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|86aa|down_0|CP016856.2_1010133_1010391_+	NA	NA|33aa|down_1|CP016856.2_1010601_1010700_-	NA	NA|463aa|down_2|CP016856.2_1010784_1012173_+	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|252aa|down_3|CP016856.2_1012252_1013008_-	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|190aa|down_4|CP016856.2_1013499_1014069_+	TIGR03137, AhpC, peroxiredoxin	NA|508aa|down_5|CP016856.2_1014084_1015608_+	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|93aa|down_6|CP016856.2_1017063_1017342_+	NA	NA|209aa|down_7|CP016856.2_1017414_1018041_+	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|128aa|down_8|CP016856.2_1018296_1018680_+	NA	NA|194aa|down_9|CP016856.2_1018745_1019327_-	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	6	1707303-1707400	5	CRISPRCasFinder	no		DEDDh,cas3,WYL,csa3,DinG	Orphan	GCCTTTCTAGCTCATAAAATTCGCAGAAA	29	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,WYL,csa3,DinG	NA|61aa|up_3|CP016856.2_1705076_1705259_+,NA|62aa|up_2|CP016856.2_1705387_1705573_+,NA|35aa|up_0|CP016856.2_1706881_1706986_+,NA|35aa|down_2|CP016856.2_1709572_1709677_-,NA|40aa|down_3|CP016856.2_1709801_1709921_+	NA|372aa|up_9|CP016856.2_1699171_1700287_+	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|231aa|up_8|CP016856.2_1700297_1700990_+	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|156aa|up_7|CP016856.2_1701000_1701468_+	pfam06177, QueT, QueT transporter	NA|326aa|up_6|CP016856.2_1701519_1702497_-	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|316aa|up_5|CP016856.2_1702498_1703446_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|310aa|up_4|CP016856.2_1704012_1704942_-	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|61aa|up_3|CP016856.2_1705076_1705259_+	NA	NA|62aa|up_2|CP016856.2_1705387_1705573_+	NA	NA|437aa|up_1|CP016856.2_1705476_1706787_-	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|35aa|up_0|CP016856.2_1706881_1706986_+	NA	NA|289aa|down_0|CP016856.2_1707539_1708406_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|229aa|down_1|CP016856.2_1708732_1709419_+	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|35aa|down_2|CP016856.2_1709572_1709677_-	NA	NA|40aa|down_3|CP016856.2_1709801_1709921_+	NA	NA|468aa|down_4|CP016856.2_1709886_1711290_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|260aa|down_5|CP016856.2_1711410_1712190_+	cd13711, PBP2_Ngo0372_TcyA, Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|240aa|down_6|CP016856.2_1712170_1712890_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|244aa|down_7|CP016856.2_1712886_1713618_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|417aa|down_8|CP016856.2_1713714_1714965_-	pfam02388, FemAB, FemAB family	NA|121aa|down_9|CP016856.2_1715219_1715582_+	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)
GCA_001717665.2_ASM171766v2	CP016856	Staphylococcus aureus subsp. aureus strain 2148.N chromosome, complete genome	7	2213853-2213984	2,6	PILER-CR,CRISPRCasFinder	no	DEDDh	DEDDh,cas3,WYL,csa3,DinG	Unclear	CAGGTTGGCGGGGCCCCAACAAAGAGAA,CAGGTTGGCGGGGCCCCAACACAGA	28,25	2	20	2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213937-2213967|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956|2213926-2213956	CP016856.2_59280-59250|CP016856.2_268861-268831|CP016856.2_369289-369319|CP016856.2_761356-761326|CP016856.2_1049973-1049943|CP016856.2_1586320-1586350|CP016856.2_1868269-1868299|CP016856.2_2540276-2540306|CP016856.2_591100-591130|CP016856.2_1857352-1857382|CP016856.2_59280-59250|CP016856.2_268861-268831|CP016856.2_369289-369319|CP016856.2_761356-761326|CP016856.2_1049973-1049943|CP016856.2_1586320-1586350|CP016856.2_1868269-1868299|CP016856.2_2540276-2540306|CP016856.2_591100-591130|CP016856.2_1857352-1857382	NA:NA	2,1	2	Orphan	DEDDh,cas3,WYL,csa3,DinG	NA|31aa|up_6|CP016856.2_2208564_2208657_+,NA|37aa|up_2|CP016856.2_2211662_2211773_+,NA|138aa|up_1|CP016856.2_2211801_2212215_+,NA|129aa|down_1|CP016856.2_2215134_2215521_+,NA|92aa|down_6|CP016856.2_2219502_2219778_-	NA|177aa|up_9|CP016856.2_2205880_2206411_+	pfam11667, DUF3267, Putative zincin peptidase	NA|357aa|up_8|CP016856.2_2206657_2207728_+	PRK02406, PRK02406, DNA polymerase IV; Validated	DEDDh|185aa|up_7|CP016856.2_2207794_2208349_-	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|31aa|up_6|CP016856.2_2208564_2208657_+	NA	NA|167aa|up_5|CP016856.2_2208738_2209239_-	COG1528, Ftn, Ferritin-like protein [Inorganic ion transport and metabolism]	NA|438aa|up_4|CP016856.2_2209530_2210844_+	COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]	NA|244aa|up_3|CP016856.2_2210845_2211577_+	COG3442, COG3442, Predicted glutamine amidotransferase [General function prediction only]	NA|37aa|up_2|CP016856.2_2211662_2211773_+	NA	NA|138aa|up_1|CP016856.2_2211801_2212215_+	NA	NA|329aa|up_0|CP016856.2_2212645_2213632_-	COG4129, COG4129, Predicted membrane protein [Function unknown]	NA|253aa|down_0|CP016856.2_2214159_2214918_+	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|129aa|down_1|CP016856.2_2215134_2215521_+	NA	NA|234aa|down_2|CP016856.2_2215535_2216237_+	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|348aa|down_3|CP016856.2_2216233_2217277_+	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|210aa|down_4|CP016856.2_2217266_2217896_+	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|406aa|down_5|CP016856.2_2218007_2219225_-	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|92aa|down_6|CP016856.2_2219502_2219778_-	NA	NA|155aa|down_7|CP016856.2_2219784_2220249_-	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|67aa|down_8|CP016856.2_2220395_2220596_+	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|419aa|down_9|CP016856.2_2220598_2221855_+	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)
