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_900323955.1_1549-REV	NZ_LT992436	Staphylococcus aureus isolate 1549-REV chromosome I	1	1239985-1240123	1	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTTTTAATATTTTTCTTTTGAGTTACTCGAAAATTTTTCTCTTTACTCGAA	51	1	1	1240036-1240072	NZ_LT992436.1_1239947-1239983	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|93aa|up_7|NZ_LT992436.1_1232023_1232302_+,NA|67aa|up_1|NZ_LT992436.1_1238658_1238859_+,NA|61aa|up_0|NZ_LT992436.1_1238840_1239023_-,NA	NA|807aa|up_9|NZ_LT992436.1_1227675_1230096_+	cd01083, GAG_Lyase, Glycosaminoglycan (GAG) polysaccharide lyase family	NA|285aa|up_8|NZ_LT992436.1_1230294_1231149_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|93aa|up_7|NZ_LT992436.1_1232023_1232302_+	NA	NA|506aa|up_6|NZ_LT992436.1_1232311_1233829_+	cd04949, GT4_GtfA-like, accessory Sec system glycosyltransferase GtfA and similar proteins	NA|272aa|up_5|NZ_LT992436.1_1234053_1234869_-	cd02605, HAD_SPP, sucrose-phosphatase, similar to Synechocystis sp PCC 6803 SPP	NA|142aa|up_4|NZ_LT992436.1_1235163_1235589_+	pfam03642, MAP, MAP domain	NA|235aa|up_3|NZ_LT992436.1_1235964_1236669_-	COG3527, AlsD, Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|555aa|up_2|NZ_LT992436.1_1236705_1238370_-	PRK08617, PRK08617, acetolactate synthase AlsS	NA|67aa|up_1|NZ_LT992436.1_1238658_1238859_+	NA	NA|61aa|up_0|NZ_LT992436.1_1238840_1239023_-	NA	NA|133aa|down_0|NZ_LT992436.1_1241899_1242298_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|146aa|down_1|NZ_LT992436.1_1242311_1242749_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|268aa|down_2|NZ_LT992436.1_1242988_1243792_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|269aa|down_3|NZ_LT992436.1_1243796_1244603_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|287aa|down_4|NZ_LT992436.1_1244592_1245453_-	PRK13646, cbiO, energy-coupling factor transporter ATPase	NA|270aa|down_5|NZ_LT992436.1_1245449_1246259_-	PRK13648, cbiO, cobalt transporter ATP-binding subunit; Provisional	NA|123aa|down_6|NZ_LT992436.1_1246796_1247165_-	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|315aa|down_7|NZ_LT992436.1_1247181_1248126_-	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|130aa|down_8|NZ_LT992436.1_1248200_1248590_-	PRK05309, PRK05309, 30S ribosomal protein S11; Validated	NA|122aa|down_9|NZ_LT992436.1_1248613_1248979_-	PRK05179, rpsM, 30S ribosomal protein S13; Validated
GCF_900323955.1_1549-REV	NZ_LT992436	Staphylococcus aureus isolate 1549-REV chromosome I	2	1430971-1431064	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	TTCTTCAAATTTATTTGTTAGAAAGG	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|35aa|up_2|NZ_LT992436.1_1428692_1428797_+,NA|35aa|down_0|NZ_LT992436.1_1431258_1431363_-	NA|200aa|up_9|NZ_LT992436.1_1422169_1422769_-	COG1651, DsbG, Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]	NA|121aa|up_8|NZ_LT992436.1_1422787_1423150_-	pfam14729, DUF4467, Domain of unknown function with cystatin-like fold (DUF4467)	NA|417aa|up_7|NZ_LT992436.1_1423404_1424655_+	pfam02388, FemAB, FemAB family	NA|244aa|up_6|NZ_LT992436.1_1424751_1425483_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|240aa|up_5|NZ_LT992436.1_1425479_1426199_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|260aa|up_4|NZ_LT992436.1_1426179_1426959_-	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_LT992436.1_1427079_1428519_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|35aa|up_2|NZ_LT992436.1_1428692_1428797_+	NA	NA|229aa|up_1|NZ_LT992436.1_1428950_1429637_-	PRK14119, gpmA, phosphoglyceromutase; Provisional	NA|289aa|up_0|NZ_LT992436.1_1429963_1430830_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|35aa|down_0|NZ_LT992436.1_1431258_1431363_-	NA	NA|438aa|down_1|NZ_LT992436.1_1431457_1432771_+	pfam11621, Sbi-IV, C3 binding domain 4 of IgG-bind protein SBI	NA|310aa|down_2|NZ_LT992436.1_1433306_1434236_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|316aa|down_3|NZ_LT992436.1_1434803_1435751_+	pfam07968, Leukocidin, Leukocidin/Hemolysin toxin family	NA|326aa|down_4|NZ_LT992436.1_1435752_1436730_+	TIGR01002, synergohymenotropic_toxin, beta-channel forming cytolysin	NA|156aa|down_5|NZ_LT992436.1_1436788_1437256_-	pfam06177, QueT, QueT transporter	NA|231aa|down_6|NZ_LT992436.1_1437266_1437959_-	COG1424, BioW, Pimeloyl-CoA synthetase [Coenzyme metabolism]	NA|372aa|down_7|NZ_LT992436.1_1437969_1439085_-	COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]	NA|336aa|down_8|NZ_LT992436.1_1439062_1440070_-	PRK06256, PRK06256, biotin synthase; Validated	NA|453aa|down_9|NZ_LT992436.1_1440071_1441430_-	TIGR00508, hypothetical_protein_DESPIG_00326, adenosylmethionine-8-amino-7-oxononanoate transaminase
GCF_900323955.1_1549-REV	NZ_LT992436	Staphylococcus aureus isolate 1549-REV chromosome I	3	2437182-2437283	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CATAAGAGCCCCTAATTAATAAATTAAAAGGGG	33	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA|39aa|up_2|NZ_LT992436.1_2435120_2435237_+,NA|230aa|down_2|NZ_LT992436.1_2439104_2439794_-,NA|100aa|down_5|NZ_LT992436.1_2440958_2441258_+	NA|336aa|up_9|NZ_LT992436.1_2426902_2427910_+	pfam01384, PHO4, Phosphate transporter family	NA|266aa|up_8|NZ_LT992436.1_2428495_2429293_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|215aa|up_7|NZ_LT992436.1_2429653_2430298_+	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|717aa|up_6|NZ_LT992436.1_2430994_2433145_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|120aa|up_5|NZ_LT992436.1_2433290_2433650_+	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|239aa|up_4|NZ_LT992436.1_2433839_2434556_+	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|158aa|up_3|NZ_LT992436.1_2434555_2435029_+	COG3542, COG3542, Uncharacterized conserved protein [Function unknown]	NA|39aa|up_2|NZ_LT992436.1_2435120_2435237_+	NA	NA|215aa|up_1|NZ_LT992436.1_2435381_2436026_+	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|289aa|up_0|NZ_LT992436.1_2436141_2437008_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|407aa|down_0|NZ_LT992436.1_2437300_2438521_+	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|163aa|down_1|NZ_LT992436.1_2438517_2439006_+	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|230aa|down_2|NZ_LT992436.1_2439104_2439794_-	NA	NA|148aa|down_3|NZ_LT992436.1_2439921_2440365_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|130aa|down_4|NZ_LT992436.1_2440431_2440821_+	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed	NA|100aa|down_5|NZ_LT992436.1_2440958_2441258_+	NA	NA|181aa|down_6|NZ_LT992436.1_2441337_2441880_+	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|189aa|down_7|NZ_LT992436.1_2441974_2442541_-	COG1611, COG1611, Predicted Rossmann fold nucleotide-binding protein [General function prediction only]	NA|153aa|down_8|NZ_LT992436.1_2442542_2443001_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|228aa|down_9|NZ_LT992436.1_2443003_2443687_-	PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed
GCF_900323955.1_1549-REV	NZ_LT992436	Staphylococcus aureus isolate 1549-REV chromosome I	4	2647048-2647193	1	PILER-CR	no		cas3,DEDDh,DinG,csa3,WYL	Orphan	CAAGTTGGCGGGGCCCCAACACAGAAGCTGGCGAAAAGCCAG	42	1	15	2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178|2647165-2647178	NZ_LT992436.1_30048-30035|NZ_LT992436.1_130496-130509|NZ_LT992436.1_350024-350011|NZ_LT992436.1_1267751-1267738|NZ_LT992436.1_1278557-1278544|NZ_LT992436.1_1278671-1278658|NZ_LT992436.1_1278731-1278718|NZ_LT992436.1_1313112-1313125|NZ_LT992436.1_1471625-1471638|NZ_LT992436.1_1983162-1983175|NZ_LT992436.1_2020315-2020328|NZ_LT992436.1_2542287-2542274|NZ_LT992436.1_2598355-2598342|NZ_LT992436.1_2647194-2647207|NZ_LT992436.1_2647250-2647263	NA	2	2	Orphan	cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|499aa|up_9|NZ_LT992436.1_2635963_2637460_-	PRK07691, PRK07691, putative monovalent cation/H+ antiporter subunit D; Reviewed	NA|114aa|up_8|NZ_LT992436.1_2637452_2637794_-	PRK08600, PRK08600, putative monovalent cation/H+ antiporter subunit C; Reviewed	NA|143aa|up_7|NZ_LT992436.1_2637793_2638222_-	PRK12573, PRK12573, Na(+)/H(+) antiporter subunit B	NA|802aa|up_6|NZ_LT992436.1_2638214_2640620_-	PRK12645, PRK12645, monovalent cation/H+ antiporter subunit A; Reviewed	NA|128aa|up_5|NZ_LT992436.1_2640750_2641134_-	pfam08810, KapB, Kinase associated protein B	NA|198aa|up_4|NZ_LT992436.1_2641197_2641791_+	cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) having a WD40 domain	NA|126aa|up_3|NZ_LT992436.1_2642206_2642584_+	COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	NA|376aa|up_2|NZ_LT992436.1_2642944_2644072_+	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|397aa|up_1|NZ_LT992436.1_2644379_2645570_+	PRK04073, rocD, ornithine--oxo-acid transaminase; Provisional	NA|415aa|up_0|NZ_LT992436.1_2645678_2646923_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|310aa|down_0|NZ_LT992436.1_2647427_2648357_-	cd08601, GDPD_SaGlpQ_like, Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins	NA|460aa|down_1|NZ_LT992436.1_2648598_2649978_-	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|402aa|down_2|NZ_LT992436.1_2649967_2651173_-	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|444aa|down_3|NZ_LT992436.1_2651523_2652855_+	PRK14097, pgi, glucose-6-phosphate isomerase; Provisional	NA|192aa|down_4|NZ_LT992436.1_2653780_2654356_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|175aa|down_5|NZ_LT992436.1_2654360_2654885_+	TIGR02227, Inactive_signal_peptidase_IA	NA|192aa|down_6|NZ_LT992436.1_2654900_2655476_+	TIGR02227, Inactive_signal_peptidase_IA	NA|1159aa|down_7|NZ_LT992436.1_2655635_2659112_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1218aa|down_8|NZ_LT992436.1_2659112_2662766_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|301aa|down_9|NZ_LT992436.1_2662931_2663834_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
