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_002407165.1_ASM240716v1	NZ_CP023539	Staphylococcus lugdunensis strain FDAARGOS_377 chromosome, complete genome	1	449109-449198	1	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	TGATTGAGAAGTCAGTCGAAAAAC	24	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA|49aa|down_2|NZ_CP023539.1_449751_449898_+,NA|70aa|down_3|NZ_CP023539.1_449890_450100_+,NA|115aa|down_9|NZ_CP023539.1_454737_455082_+	NA|48aa|up_9|NZ_CP023539.1_439221_439365_-	smart00794, AgrD, Staphylococcal AgrD protein	NA|189aa|up_8|NZ_CP023539.1_439367_439934_-	smart00793, AgrB, Accessory gene regulator B	NA|262aa|up_7|NZ_CP023539.1_440561_441347_-	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|208aa|up_6|NZ_CP023539.1_441481_442105_-	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|503aa|up_5|NZ_CP023539.1_442298_443807_+	pfam05297, Herpes_LMP1, Herpesvirus latent membrane protein 1 (LMP1)	NA|247aa|up_4|NZ_CP023539.1_444225_444966_-	pfam02517, Abi, CAAX protease self-immunity	NA|95aa|up_3|NZ_CP023539.1_445146_445431_+	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|541aa|up_2|NZ_CP023539.1_445490_447113_+	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|391aa|up_1|NZ_CP023539.1_447181_448354_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|225aa|up_0|NZ_CP023539.1_448367_449042_-	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|73aa|down_0|NZ_CP023539.1_449214_449433_+	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|106aa|down_1|NZ_CP023539.1_449437_449755_+	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|49aa|down_2|NZ_CP023539.1_449751_449898_+	NA	NA|70aa|down_3|NZ_CP023539.1_449890_450100_+	NA	NA|108aa|down_4|NZ_CP023539.1_450102_450426_+	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|290aa|down_5|NZ_CP023539.1_450489_451359_+	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|570aa|down_6|NZ_CP023539.1_451372_453082_+	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|122aa|down_7|NZ_CP023539.1_453429_453795_+	cd03313, enolase, Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways	NA|214aa|down_8|NZ_CP023539.1_453808_454450_+	pfam16560, SAPI, Putative mobile pathogenicity island	NA|115aa|down_9|NZ_CP023539.1_454737_455082_+	NA
GCF_002407165.1_ASM240716v1	NZ_CP023539	Staphylococcus lugdunensis strain FDAARGOS_377 chromosome, complete genome	2	685497-685587	2	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	AAACTCGCCATGCTCGTTAAGTGC	24	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA	NA|286aa|up_9|NZ_CP023539.1_672553_673411_+	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|315aa|up_8|NZ_CP023539.1_673412_674357_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|323aa|up_7|NZ_CP023539.1_674519_675488_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|587aa|up_6|NZ_CP023539.1_675505_677266_+	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|161aa|up_5|NZ_CP023539.1_677567_678050_+	COG1943, COG1943, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|453aa|up_4|NZ_CP023539.1_678557_679916_-	PRK11049, PRK11049, D-alanine/D-serine/glycine permease; Provisional	NA|373aa|up_3|NZ_CP023539.1_680257_681376_+	PRK14035, PRK14035, citrate synthase; Provisional	NA|423aa|up_2|NZ_CP023539.1_681423_682692_+	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|237aa|up_1|NZ_CP023539.1_682895_683606_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|570aa|up_0|NZ_CP023539.1_683605_685315_+	TIGR02966, Phosphate_regulon_sensor_protein_PhoR, phosphate regulon sensor kinase PhoR	NA|878aa|down_0|NZ_CP023539.1_685634_688268_+	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|291aa|down_1|NZ_CP023539.1_688284_689157_+	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]	NA|202aa|down_2|NZ_CP023539.1_689172_689778_+	PRK00081, coaE, dephospho-CoA kinase; Reviewed	NA|334aa|down_3|NZ_CP023539.1_689924_690926_+	PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase; Validated	NA|336aa|down_4|NZ_CP023539.1_691098_692106_+	PRK06256, PRK06256, biotin synthase; Validated	NA|157aa|down_5|NZ_CP023539.1_692422_692893_+	PRK00464, nrdR, transcriptional repressor NrdR	NA|459aa|down_6|NZ_CP023539.1_692893_694270_+	COG3611, DnaB, Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]	NA|307aa|down_7|NZ_CP023539.1_694269_695190_+	PRK08939, PRK08939, primosomal protein DnaI; Reviewed	NA|646aa|down_8|NZ_CP023539.1_695549_697487_+	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed	NA|498aa|down_9|NZ_CP023539.1_697950_699444_+	COG0833, LysP, Amino acid transporters [Amino acid transport and metabolism]
GCF_002407165.1_ASM240716v1	NZ_CP023539	Staphylococcus lugdunensis strain FDAARGOS_377 chromosome, complete genome	3	1115920-1116006	3	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	GAAATTCGACAAACAAAGCAAGTTGGGGTG	30	1	1	1115950-1115976	NZ_CP023539.1_1673405-1673379	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA	NA|241aa|up_9|NZ_CP023539.1_1104301_1105024_-	PRK00358, pyrH, uridylate kinase; Provisional	NA|293aa|up_8|NZ_CP023539.1_1105160_1106039_-	PRK09377, tsf, elongation factor Ts; Provisional	NA|263aa|up_7|NZ_CP023539.1_1106222_1107011_-	PRK05299, rpsB, 30S ribosomal protein S2; Provisional	NA|258aa|up_6|NZ_CP023539.1_1107229_1108003_-	PRK04158, PRK04158, GTP-sensing pleiotropic transcriptional regulator CodY	NA|468aa|up_5|NZ_CP023539.1_1108024_1109428_-	PRK05201, hslU, ATP-dependent protease ATPase subunit HslU	NA|181aa|up_4|NZ_CP023539.1_1109474_1110017_-	PRK05456, PRK05456, ATP-dependent protease subunit HslV	NA|298aa|up_3|NZ_CP023539.1_1110017_1110911_-	TIGR02224, Tyrosine_recombinase_XerC, tyrosine recombinase XerC	NA|436aa|up_2|NZ_CP023539.1_1111042_1112350_-	PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed	NA|692aa|up_1|NZ_CP023539.1_1112401_1114477_-	PRK05582, PRK05582, type I DNA topoisomerase	NA|291aa|up_0|NZ_CP023539.1_1114642_1115515_-	pfam02481, DNA_processg_A, DNA recombination-mediator protein A	NA|412aa|down_0|NZ_CP023539.1_1116174_1117410_-	pfam02388, FemAB, FemAB family	NA|303aa|down_1|NZ_CP023539.1_1117572_1118481_-	PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha; Validated	NA|389aa|down_2|NZ_CP023539.1_1118502_1119669_-	PRK00696, sucC, ADP-forming succinate--CoA ligase subunit beta	NA|256aa|down_3|NZ_CP023539.1_1119779_1120547_-	cd07182, RNase_HII_bacteria_HII_like, Bacterial Ribonuclease HII-like	NA|295aa|down_4|NZ_CP023539.1_1120530_1121415_-	PRK09563, rbgA, GTPase YlqF; Reviewed	NA|864aa|down_5|NZ_CP023539.1_1121671_1124263_+	pfam09586, YfhO, Bacterial membrane protein YfhO	NA|869aa|down_6|NZ_CP023539.1_1124267_1126874_+	COG4485, COG4485, Predicted membrane protein [Function unknown]	NA|117aa|down_7|NZ_CP023539.1_1127120_1127471_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|246aa|down_8|NZ_CP023539.1_1127576_1128314_-	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed	NA|167aa|down_9|NZ_CP023539.1_1128313_1128814_-	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional
GCF_002407165.1_ASM240716v1	NZ_CP023539	Staphylococcus lugdunensis strain FDAARGOS_377 chromosome, complete genome	4	1632212-1632292	4	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	GGGGCCCCAGCACAAAGAAATGC	23	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA|34aa|up_9|NZ_CP023539.1_1624659_1624761_-,NA|227aa|up_5|NZ_CP023539.1_1628036_1628717_+,NA|99aa|up_1|NZ_CP023539.1_1630437_1630734_-,NA|151aa|up_0|NZ_CP023539.1_1630859_1631312_-,NA	NA|34aa|up_9|NZ_CP023539.1_1624659_1624761_-	NA	NA|311aa|up_8|NZ_CP023539.1_1624868_1625801_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|147aa|up_7|NZ_CP023539.1_1626025_1626466_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|291aa|up_6|NZ_CP023539.1_1626847_1627720_+	PRK00281, PRK00281, undecaprenyl-diphosphate phosphatase	NA|227aa|up_5|NZ_CP023539.1_1628036_1628717_+	NA	NA|149aa|up_4|NZ_CP023539.1_1628721_1629168_+	PRK00124, PRK00124, YaiI/YqxD family protein	NA|189aa|up_3|NZ_CP023539.1_1629183_1629750_+	TIGR00730, LOG_family_protein_YJL055W, TIGR00730 family protein	NA|181aa|up_2|NZ_CP023539.1_1629781_1630324_-	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|99aa|up_1|NZ_CP023539.1_1630437_1630734_-	NA	NA|151aa|up_0|NZ_CP023539.1_1630859_1631312_-	NA	NA|162aa|down_0|NZ_CP023539.1_1632661_1633147_-	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|406aa|down_1|NZ_CP023539.1_1633148_1634366_-	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|285aa|down_2|NZ_CP023539.1_1634451_1635306_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|207aa|down_3|NZ_CP023539.1_1635806_1636427_-	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|156aa|down_4|NZ_CP023539.1_1636810_1637278_-	cd06121, cupin_YML079wp, Saccharomyces cerevisiae YML079wp and related proteins, cupin domain	NA|239aa|down_5|NZ_CP023539.1_1637277_1637994_-	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|120aa|down_6|NZ_CP023539.1_1638227_1638587_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|715aa|down_7|NZ_CP023539.1_1638730_1640875_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|218aa|down_8|NZ_CP023539.1_1641183_1641837_-	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|268aa|down_9|NZ_CP023539.1_1642204_1643008_+	COG3942, COG3942, Surface antigen [General function prediction only]
GCF_002407165.1_ASM240716v1	NZ_CP023539	Staphylococcus lugdunensis strain FDAARGOS_377 chromosome, complete genome	5	2218259-2218349	5	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	CCCCAACTTGCTTTGCTTGATGAATTTCTTTTT	33	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA|107aa|up_9|NZ_CP023539.1_2208219_2208540_+,NA|90aa|up_8|NZ_CP023539.1_2208603_2208873_+,NA|193aa|up_5|NZ_CP023539.1_2211040_2211619_-,NA|101aa|down_5|NZ_CP023539.1_2226860_2227163_+	NA|107aa|up_9|NZ_CP023539.1_2208219_2208540_+	NA	NA|90aa|up_8|NZ_CP023539.1_2208603_2208873_+	NA	NA|266aa|up_7|NZ_CP023539.1_2209246_2210044_-	pfam00797, Acetyltransf_2, N-acetyltransferase	NA|252aa|up_6|NZ_CP023539.1_2210181_2210937_-	PRK12826, PRK12826, SDR family oxidoreductase	NA|193aa|up_5|NZ_CP023539.1_2211040_2211619_-	NA	NA|512aa|up_4|NZ_CP023539.1_2211866_2213402_+	TIGR02002, PTS_system_glucose-specific_IIABC_component, PTS system, glucose-specific IIBC component	NA|257aa|up_3|NZ_CP023539.1_2213607_2214378_-	cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR	NA|478aa|up_2|NZ_CP023539.1_2214398_2215832_-	cd07080, ALDH_Acyl-CoA-Red_LuxC, Acyl-CoA reductase LuxC	NA|356aa|up_1|NZ_CP023539.1_2215844_2216912_-	pfam04443, LuxE, Acyl-protein synthetase, LuxE	NA|191aa|up_0|NZ_CP023539.1_2217413_2217986_+	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|459aa|down_0|NZ_CP023539.1_2218415_2219792_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|1011aa|down_1|NZ_CP023539.1_2219804_2222837_-	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|299aa|down_2|NZ_CP023539.1_2222914_2223811_-	COG1477, ApbE, Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]	NA|171aa|down_3|NZ_CP023539.1_2224130_2224643_+	COG3247, HdeD, Uncharacterized conserved protein [Function unknown]	NA|400aa|down_4|NZ_CP023539.1_2225155_2226355_+	COG1168, MalY, Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]	NA|101aa|down_5|NZ_CP023539.1_2226860_2227163_+	NA	NA|451aa|down_6|NZ_CP023539.1_2227667_2229020_+	TIGR01350, Dihydrolipoyl_dehydrogenase, dihydrolipoamide dehydrogenase	NA|316aa|down_7|NZ_CP023539.1_2229108_2230056_+	cd02000, TPP_E1_PDC_ADC_BCADC, Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain alpha-keto acid dehydrogenase/2-oxoisovalerate dehydrogenase complex (BCADC)	NA|347aa|down_8|NZ_CP023539.1_2230071_2231112_+	COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]	NA|431aa|down_9|NZ_CP023539.1_2231129_2232422_+	PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed
