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_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	1	187997-188080	1	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	AACCCCAACTTGCTTTGCTTGGCGAA	26	1	5	188023-188054|188023-188054|188023-188054|188023-188054|188023-188054	NZ_CP041725.1_37867-37836|NZ_CP041725.1_37924-37893|NZ_CP041725.1_259900-259869|NZ_CP041725.1_1377899-1377930|NZ_CP041725.1_2304841-2304810	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA	NA|260aa|up_9|NZ_CP041725.1_176676_177456_+	PRK06136, PRK06136, uroporphyrinogen-III C-methyltransferase	NA|204aa|up_8|NZ_CP041725.1_177476_178088_+	PRK06718, PRK06718, NAD(P)-binding protein	NA|300aa|up_7|NZ_CP041725.1_178105_179005_+	pfam01925, TauE, Sulfite exporter TauE/SafE	NA|393aa|up_6|NZ_CP041725.1_179027_180206_+	PRK04149, sat, sulfate adenylyltransferase; Reviewed	NA|200aa|up_5|NZ_CP041725.1_180222_180822_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|407aa|up_4|NZ_CP041725.1_181126_182347_+	PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase; Reviewed	NA|257aa|up_3|NZ_CP041725.1_182735_183506_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|616aa|up_2|NZ_CP041725.1_183704_185552_+	PRK09263, PRK09263, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|179aa|up_1|NZ_CP041725.1_185553_186090_+	pfam13353, Fer4_12, 4Fe-4S single cluster domain	NA|431aa|up_0|NZ_CP041725.1_186446_187739_+	PRK09412, PRK09412, anaerobic C4-dicarboxylate transporter; Reviewed	NA|542aa|down_0|NZ_CP041725.1_188661_190287_+	COG1292, BetT, Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]	NA|187aa|down_1|NZ_CP041725.1_190339_190900_-	COG1510, COG1510, Predicted transcriptional regulators [Transcription]	NA|497aa|down_2|NZ_CP041725.1_191267_192758_+	cd07119, ALDH_BADH-GbsA, Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like	NA|569aa|down_3|NZ_CP041725.1_192849_194556_+	PRK02106, PRK02106, choline dehydrogenase; Validated	NA|393aa|down_4|NZ_CP041725.1_194803_195982_+	cd08021, M20_Acy1_YhaA-like, M20 Peptidase aminoacylase 1 subfamily, includes Bacillus subtilis YhaA and Staphylococcus aureus amidohydrolase, SACOL0085	NA|90aa|down_5|NZ_CP041725.1_196120_196390_+	pfam06855, YozE_SAM_like, YozE SAM-like fold	NA|150aa|down_6|NZ_CP041725.1_196379_196829_+	COG2329, COG2329, Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]	NA|531aa|down_7|NZ_CP041725.1_197465_199058_+	cd05972, MACS_like, Medium-chain acyl-CoA synthetase (MACS or ACSM)	NA|875aa|down_8|NZ_CP041725.1_199306_201931_+	PRK09279, PRK09279, pyruvate phosphate dikinase; Provisional	NA|272aa|down_9|NZ_CP041725.1_201935_202751_+	PRK05339, PRK05339, pyruvate, phosphate dikinase/phosphoenolpyruvate synthase regulator
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	2	370102-370183	2	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	GCAAGTTGGGGTGGGGCCCCAACAAA	26	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA|64aa|up_8|NZ_CP041725.1_359193_359385_+,NA|508aa|down_5|NZ_CP041725.1_375973_377497_+	NA|452aa|up_9|NZ_CP041725.1_357654_359010_+	TIGR01350, Dihydrolipoyl_dehydrogenase, dihydrolipoamide dehydrogenase	NA|64aa|up_8|NZ_CP041725.1_359193_359385_+	NA	NA|89aa|up_7|NZ_CP041725.1_359539_359806_-	pfam07205, DUF1413, Domain of unknown function (DUF1413)	NA|232aa|up_6|NZ_CP041725.1_359960_360656_+	COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]	NA|412aa|up_5|NZ_CP041725.1_360855_362091_+	PRK08596, PRK08596, acetylornithine deacetylase; Validated	NA|722aa|up_4|NZ_CP041725.1_362473_364639_-	PRK05443, PRK05443, polyphosphate kinase; Provisional	NA|513aa|up_3|NZ_CP041725.1_364731_366270_-	TIGR03706, exo_poly_only, exopolyphosphatase	NA|516aa|up_2|NZ_CP041725.1_366579_368127_-	pfam03806, ABG_transport, AbgT putative transporter family	NA|359aa|up_1|NZ_CP041725.1_368361_369438_-	cd05656, M42_Frv, M42 Peptidase, endoglucanases	NA|152aa|up_0|NZ_CP041725.1_369603_370059_+	COG4808, COG4808, Uncharacterized protein conserved in bacteria [Function unknown]	NA|427aa|down_0|NZ_CP041725.1_370429_371710_-	COG2873, MET17, O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]	NA|277aa|down_1|NZ_CP041725.1_372239_373070_-	TIGR01097, PhnE, phosphonate ABC transporter, permease protein PhnE	NA|269aa|down_2|NZ_CP041725.1_373066_373873_-	TIGR01097, PhnE, phosphonate ABC transporter, permease protein PhnE	NA|258aa|down_3|NZ_CP041725.1_373874_374648_-	TIGR02315, Phosphonates_import_ATP-binding_protein_PhnC, phosphonate ABC transporter, ATP-binding protein	NA|318aa|down_4|NZ_CP041725.1_374773_375727_-	COG3221, PhnD, ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|508aa|down_5|NZ_CP041725.1_375973_377497_+	NA	NA|513aa|down_6|NZ_CP041725.1_377513_379052_+	COG0737, UshA, 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]	NA|526aa|down_7|NZ_CP041725.1_379303_380881_-	COG0069, GltB, Glutamate synthase domain 2 [Amino acid transport and metabolism]	NA|255aa|down_8|NZ_CP041725.1_381196_381961_+	COG1266, COG1266, Predicted metal-dependent membrane protease [General function prediction only]	NA|260aa|down_9|NZ_CP041725.1_381983_382763_+	COG1266, COG1266, Predicted metal-dependent membrane protease [General function prediction only]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	3	402410-402490	3	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	ACGGATAACGCAAGCTGGGGTGG	23	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA|122aa|up_7|NZ_CP041725.1_396581_396947_+,NA|315aa|down_9|NZ_CP041725.1_414597_415542_+	NA|227aa|up_9|NZ_CP041725.1_395303_395984_+	COG1174, OpuBB, ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]	NA|91aa|up_8|NZ_CP041725.1_396293_396566_+	TIGR04197, conserved_hypothetical_protein, type VII secretion effector, SACOL2603 family	NA|122aa|up_7|NZ_CP041725.1_396581_396947_+	NA	NA|486aa|up_6|NZ_CP041725.1_396936_398394_+	pfam04740, LXG, LXG domain of WXG superfamily	NA|209aa|up_5|NZ_CP041725.1_398396_399023_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|219aa|up_4|NZ_CP041725.1_399072_399729_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|104aa|up_3|NZ_CP041725.1_399725_400037_+	COG4495, COG4495, Uncharacterized protein conserved in bacteria [Function unknown]	NA|214aa|up_2|NZ_CP041725.1_400170_400812_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|234aa|up_1|NZ_CP041725.1_401083_401785_-	PRK04288, PRK04288, antiholin-like protein LrgB; Provisional	NA|154aa|up_0|NZ_CP041725.1_401784_402246_-	PRK04125, PRK04125, antiholin-like protein LrgA	NA|254aa|down_0|NZ_CP041725.1_402756_403518_-	PRK14084, PRK14084, DNA-binding response regulator	NA|585aa|down_1|NZ_CP041725.1_403518_405273_-	COG3275, LytS, Putative regulator of cell autolysis [Signal transduction mechanisms]	NA|465aa|down_2|NZ_CP041725.1_405580_406975_+	cd17321, MFS_MMR_MDR_like, Methylenomycin A resistance protein (also called MMR peptide) and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|311aa|down_3|NZ_CP041725.1_407157_408090_+	PRK06522, PRK06522, 2-dehydropantoate 2-reductase; Reviewed	NA|89aa|down_4|NZ_CP041725.1_408271_408538_+	TIGR01575, rimI, ribosomal-protein-alanine acetyltransferase	NA|284aa|down_5|NZ_CP041725.1_408741_409593_+	COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]	NA|274aa|down_6|NZ_CP041725.1_409656_410478_-	PRK01622, PRK01622, membrane protein insertase YidC	NA|504aa|down_7|NZ_CP041725.1_410589_412101_-	pfam00144, Beta-lactamase, Beta-lactamase	NA|609aa|down_8|NZ_CP041725.1_412382_414209_+	pfam13520, AA_permease_2, Amino acid permease	NA|315aa|down_9|NZ_CP041725.1_414597_415542_+	NA
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	4	490629-490777	1	PILER-CR	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	TTTGTTGGGGCCCCACCCCAACTTGCTTTGTCCGTTGCCTTTCTTTTG	48	1	4	490686-490702|490686-490702|490686-490702|490686-490702	NZ_CP041725.1_808348-808364|NZ_CP041725.1_2338398-2338414|NZ_CP041725.1_2338455-2338471|NZ_CP041725.1_2026800-2026784	NA	2	2	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA|126aa|down_2|NZ_CP041725.1_493787_494165_-,NA|71aa|down_3|NZ_CP041725.1_494182_494395_-,NA|102aa|down_4|NZ_CP041725.1_494869_495175_-	NA|151aa|up_9|NZ_CP041725.1_478908_479361_-	PRK13261, ureE, urease accessory protein UreE; Provisional	NA|572aa|up_8|NZ_CP041725.1_479373_481089_-	PRK13207, ureC, urease subunit alpha; Reviewed	NA|136aa|up_7|NZ_CP041725.1_481088_481496_-	PRK13201, ureB, urease subunit beta; Reviewed	NA|101aa|up_6|NZ_CP041725.1_481508_481811_-	PRK13241, ureA, urease subunit gamma; Provisional	NA|299aa|up_5|NZ_CP041725.1_482019_482916_+	TIGR03441, urea_trans_yut, urea transporter, Yersinia type	NA|196aa|up_4|NZ_CP041725.1_483135_483723_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|592aa|up_3|NZ_CP041725.1_483926_485702_+	PRK13977, PRK13977, myosin-cross-reactive antigen; Provisional	NA|579aa|up_2|NZ_CP041725.1_486419_488156_+	PRK09284, PRK09284, thiamine biosynthesis protein ThiC; Provisional	NA|302aa|up_1|NZ_CP041725.1_488710_489616_+	COG2962, RarD, Predicted permeases [General function prediction only]	NA|215aa|up_0|NZ_CP041725.1_489846_490491_+	TIGR01218, conserved_hypothetical_protein, tandem five-transmembrane protein	NA|211aa|down_0|NZ_CP041725.1_491013_491646_+	pfam01944, SpoIIM, Stage II sporulation protein M	NA|538aa|down_1|NZ_CP041725.1_491973_493587_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|126aa|down_2|NZ_CP041725.1_493787_494165_-	NA	NA|71aa|down_3|NZ_CP041725.1_494182_494395_-	NA	NA|102aa|down_4|NZ_CP041725.1_494869_495175_-	NA	NA|212aa|down_5|NZ_CP041725.1_495373_496009_+	pfam04276, DUF443, Protein of unknown function (DUF443)	NA|383aa|down_6|NZ_CP041725.1_496216_497365_-	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|284aa|down_7|NZ_CP041725.1_497504_498356_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|177aa|down_8|NZ_CP041725.1_498399_498930_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|204aa|down_9|NZ_CP041725.1_499356_499968_-	pfam01381, HTH_3, Helix-turn-helix
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	5	543351-543437	4	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	GCAAGTTGGGGTGGGGCCCCAACACAAAGA	30	1	3	543381-543407|543381-543407|543381-543407	NZ_CP041725.1_2615185-2615211|NZ_CP041725.1_586145-586171|NZ_CP041725.1_586202-586228	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA|130aa|down_2|NZ_CP041725.1_545499_545889_-	NA|225aa|up_9|NZ_CP041725.1_532568_533243_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|354aa|up_8|NZ_CP041725.1_533370_534432_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|223aa|up_7|NZ_CP041725.1_534428_535097_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|318aa|up_6|NZ_CP041725.1_535187_536141_-	cd06259, YdcF-like, YdcF-like	NA|154aa|up_5|NZ_CP041725.1_536316_536778_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|458aa|up_4|NZ_CP041725.1_536875_538249_+	COG4640, COG4640, Predicted membrane protein [Function unknown]	NA|402aa|up_3|NZ_CP041725.1_538350_539556_+	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|184aa|up_2|NZ_CP041725.1_539997_540549_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|216aa|up_1|NZ_CP041725.1_540681_541329_+	COG1566, EmrA, Multidrug resistance efflux pump [Defense mechanisms]	NA|655aa|up_0|NZ_CP041725.1_541341_543306_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|236aa|down_0|NZ_CP041725.1_543642_544350_-	COG1033, COG1033, Predicted exporters of the RND superfamily [General function prediction only]	NA|303aa|down_1|NZ_CP041725.1_544558_545467_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|130aa|down_2|NZ_CP041725.1_545499_545889_-	NA	NA|156aa|down_3|NZ_CP041725.1_545894_546362_-	pfam13279, 4HBT_2, Thioesterase-like superfamily	NA|316aa|down_4|NZ_CP041725.1_546480_547428_+	cd12831, TmCorA-like_u2, Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family	NA|351aa|down_5|NZ_CP041725.1_547473_548526_+	PRK05437, PRK05437, isopentenyl pyrophosphate isomerase; Provisional	NA|203aa|down_6|NZ_CP041725.1_548650_549259_-	cd00540, AAG, Alkyladenine DNA glycosylase catalyzes the first step in base excision repair	NA|72aa|down_7|NZ_CP041725.1_549496_549712_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|337aa|down_8|NZ_CP041725.1_550266_551277_+	cd09019, galactose_mutarotase_like, galactose mutarotase_like	NA|218aa|down_9|NZ_CP041725.1_551352_552006_-	COG2258, COG2258, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	6	1101666-1101756	5	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	AAACTCGTCATGCTCGTTAAGTGC	24	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA	NA|410aa|up_9|NZ_CP041725.1_1087897_1089127_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|286aa|up_8|NZ_CP041725.1_1089215_1090073_+	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|315aa|up_7|NZ_CP041725.1_1090074_1091019_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|323aa|up_6|NZ_CP041725.1_1091181_1092150_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|587aa|up_5|NZ_CP041725.1_1092167_1093928_+	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|453aa|up_4|NZ_CP041725.1_1094481_1095840_-	PRK11049, PRK11049, D-alanine/D-serine/glycine permease; Provisional	NA|373aa|up_3|NZ_CP041725.1_1096181_1097300_+	PRK14035, PRK14035, citrate synthase; Provisional	NA|423aa|up_2|NZ_CP041725.1_1097347_1098616_+	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|237aa|up_1|NZ_CP041725.1_1098819_1099530_+	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_CP041725.1_1099529_1101239_+	TIGR02966, Phosphate_regulon_sensor_protein_PhoR, phosphate regulon sensor kinase PhoR	NA|878aa|down_0|NZ_CP041725.1_1101803_1104437_+	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|291aa|down_1|NZ_CP041725.1_1104453_1105326_+	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]	NA|202aa|down_2|NZ_CP041725.1_1105341_1105947_+	PRK00081, coaE, dephospho-CoA kinase; Reviewed	NA|334aa|down_3|NZ_CP041725.1_1106093_1107095_+	PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase; Validated	NA|336aa|down_4|NZ_CP041725.1_1107269_1108277_+	PRK06256, PRK06256, biotin synthase; Validated	NA|157aa|down_5|NZ_CP041725.1_1108593_1109064_+	PRK00464, nrdR, transcriptional repressor NrdR	NA|459aa|down_6|NZ_CP041725.1_1109064_1110441_+	COG3611, DnaB, Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]	NA|307aa|down_7|NZ_CP041725.1_1110440_1111361_+	PRK08939, PRK08939, primosomal protein DnaI; Reviewed	NA|646aa|down_8|NZ_CP041725.1_1111720_1113658_+	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed	NA|498aa|down_9|NZ_CP041725.1_1114121_1115615_+	COG0833, LysP, Amino acid transporters [Amino acid transport and metabolism]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	7	1665930-1666016	6	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	TGTTGGGGCCCCACCCCAACTCGCGTTGTT	30	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA	NA|272aa|up_9|NZ_CP041725.1_1656150_1656966_-	cd01637, IMPase_like, Inositol-monophosphatase-like domains	NA|204aa|up_8|NZ_CP041725.1_1657148_1657760_+	pfam06335, DUF1054, Protein of unknown function (DUF1054)	NA|451aa|up_7|NZ_CP041725.1_1658021_1659374_+	PRK00701, PRK00701, divalent metal cation transporter MntH	NA|152aa|up_6|NZ_CP041725.1_1659636_1660092_-	pfam13273, DUF4064, Protein of unknown function (DUF4064)	NA|349aa|up_5|NZ_CP041725.1_1660223_1661270_-	pfam13273, DUF4064, Protein of unknown function (DUF4064)	NA|358aa|up_4|NZ_CP041725.1_1661342_1662416_-	cd13663, PBP2_PotD_PotF_like_2, The periplasmic substrate-binding component of an uncharacterized active transport system closely related to spermidine and putrescine transporters; contains the type 2 periplasmic binding fold	NA|271aa|up_3|NZ_CP041725.1_1662412_1663225_-	COG1177, PotC, ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]	NA|266aa|up_2|NZ_CP041725.1_1663230_1664028_-	COG1176, PotB, ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]	NA|365aa|up_1|NZ_CP041725.1_1664020_1665115_-	COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]	NA|180aa|up_0|NZ_CP041725.1_1665129_1665669_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|96aa|down_0|NZ_CP041725.1_1666054_1666342_-	PRK04387, PRK04387, hypothetical protein; Provisional	NA|469aa|down_1|NZ_CP041725.1_1666545_1667952_-	PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed	NA|435aa|down_2|NZ_CP041725.1_1667955_1669260_-	PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed	NA|326aa|down_3|NZ_CP041725.1_1669472_1670450_-	COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]	NA|371aa|down_4|NZ_CP041725.1_1670453_1671566_-	TIGR03181, PDH_E1_alph_x, pyruvate dehydrogenase E1 component, alpha subunit	NA|210aa|down_5|NZ_CP041725.1_1671732_1672362_-	pfam10368, YkyA, Putative cell-wall binding lipoprotein	NA|184aa|down_6|NZ_CP041725.1_1672499_1673051_+	PRK00150, def, peptide deformylase; Reviewed	NA|73aa|down_7|NZ_CP041725.1_1673485_1673704_+	PRK13667, PRK13667, hypothetical protein; Provisional	NA|560aa|down_8|NZ_CP041725.1_1673703_1675383_+	COG0595, COG0595, mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]	NA|220aa|down_9|NZ_CP041725.1_1675977_1676637_-	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	8	1758729-1758823	7	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	TTCCCCAGCTTGCACATTTCTGTTGAATTTCTTAC	35	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA|116aa|up_3|NZ_CP041725.1_1756092_1756440_-,NA	NA|257aa|up_9|NZ_CP041725.1_1749441_1750212_-	PRK08594, PRK08594, enoyl-[acyl-carrier-protein] reductase FabI	NA|615aa|up_8|NZ_CP041725.1_1750499_1752344_-	pfam00999, Na_H_Exchanger, Sodium/hydrogen exchanger family	NA|462aa|up_7|NZ_CP041725.1_1752354_1753740_-	COG2239, MgtE, Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]	NA|285aa|up_6|NZ_CP041725.1_1753765_1754620_-	COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]	NA|270aa|up_5|NZ_CP041725.1_1754616_1755426_-	PRK04885, ppnK, inorganic polyphosphate/ATP-NAD kinase; Provisional	NA|212aa|up_4|NZ_CP041725.1_1755440_1756076_-	COG2357, COG2357, PpGpp synthetase catalytic domain [General function prediction only]	NA|116aa|up_3|NZ_CP041725.1_1756092_1756440_-	NA	NA|191aa|up_2|NZ_CP041725.1_1756633_1757206_+	COG4116, COG4116, Uncharacterized protein conserved in bacteria [Function unknown]	NA|122aa|up_1|NZ_CP041725.1_1757305_1757671_+	COG2346, COG2346, Truncated hemoglobins [General function prediction only]	NA|266aa|up_0|NZ_CP041725.1_1757693_1758491_+	pfam13743, Thioredoxin_5, Thioredoxin	NA|603aa|down_0|NZ_CP041725.1_1759137_1760946_-	cd09608, M3B_PepF, Peptidase family M3B, oligopeptidase F (PepF)	NA|324aa|down_1|NZ_CP041725.1_1760997_1761969_-	COG4469, CoiA, Competence protein CoiA-like family, contains a predicted nuclease    domain [General function prediction only]	NA|244aa|down_2|NZ_CP041725.1_1762069_1762801_-	PRK02315, PRK02315, adaptor protein MecA	NA|132aa|down_3|NZ_CP041725.1_1763021_1763417_-	PRK01655, spxA, transcriptional regulator Spx; Reviewed	NA|330aa|down_4|NZ_CP041725.1_1763704_1764694_+	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|252aa|down_5|NZ_CP041725.1_1764880_1765636_+	pfam13649, Methyltransf_25, Methyltransferase domain	NA|551aa|down_6|NZ_CP041725.1_1765844_1767497_-	cd08504, PBP2_OppA, The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold	NA|314aa|down_7|NZ_CP041725.1_1767522_1768464_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|361aa|down_8|NZ_CP041725.1_1768453_1769536_-	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|355aa|down_9|NZ_CP041725.1_1769550_1770615_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	9	1996131-1996210	8	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Orphan	CCAAGCAAAGCAAGTTGGGGTGG	23	1	5	1996154-1996187|1996154-1996187|1996154-1996187|1996154-1996187|1996154-1996187	NZ_CP041725.1_1057728-1057761|NZ_CP041725.1_2479743-2479710|NZ_CP041725.1_579273-579306|NZ_CP041725.1_878330-878363|NZ_CP041725.1_896818-896785	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA	NA|261aa|up_9|NZ_CP041725.1_1983963_1984746_-	COG4604, CeuD, ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]	NA|320aa|up_8|NZ_CP041725.1_1984742_1985702_-	COG4605, CeuC, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|326aa|up_7|NZ_CP041725.1_1985682_1986660_-	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|323aa|up_6|NZ_CP041725.1_1987028_1987997_-	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|702aa|up_5|NZ_CP041725.1_1988236_1990342_-	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|133aa|up_4|NZ_CP041725.1_1990304_1990703_-	PRK03600, nrdI, class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA|290aa|up_3|NZ_CP041725.1_1991576_1992446_+	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|167aa|up_2|NZ_CP041725.1_1992458_1992959_+	PRK13258, PRK13258, 7-cyano-7-deazaguanine reductase; Provisional	NA|502aa|up_1|NZ_CP041725.1_1993243_1994749_+	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|305aa|up_0|NZ_CP041725.1_1995076_1995991_+	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|177aa|down_0|NZ_CP041725.1_1996364_1996895_-	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|352aa|down_1|NZ_CP041725.1_1997132_1998188_-	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|505aa|down_2|NZ_CP041725.1_1998310_1999825_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|505aa|down_3|NZ_CP041725.1_2000105_2001620_-	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|323aa|down_4|NZ_CP041725.1_2001616_2002585_-	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|594aa|down_5|NZ_CP041725.1_2002801_2004583_-	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|628aa|down_6|NZ_CP041725.1_2004596_2006480_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|272aa|down_7|NZ_CP041725.1_2006591_2007407_+	COG0428, COG0428, Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]	NA|646aa|down_8|NZ_CP041725.1_2007574_2009512_-	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|335aa|down_9|NZ_CP041725.1_2010062_2011067_-	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
GCF_008728755.1_ASM872875v1	NZ_CP041725	Staphylococcus lugdunensis strain SL117 chromosome, complete genome	10	2500121-2500592	2,9,1	PILER-CR,CRISPRCasFinder,CRT	no	cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	Type III-B,Type III-A,Type III-D,Type III-C	AATCAGAGAATACCCCGTATAAAAGGGGACGAGAAC,AATCAGAGAATACCCCGTATAAAAGGGGACGAGAAC,AATCAGAGAATACCCCGTATAAAAGGGGACGAGAAC	36,36,36	0	0	NA	NA	NA:NA:NA	5,6,6	6	TypeIII-B,TypeIII-A,TypeIII-D,TypeIII-C	WYL,csa3,DEDDh,cas3,DinG,cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6	NA,NA|118aa|down_0|NZ_CP041725.1_2500785_2501139_+,NA|109aa|down_7|NZ_CP041725.1_2515616_2515943_+,NA|96aa|down_8|NZ_CP041725.1_2515945_2516233_+	cas1|302aa|up_9|NZ_CP041725.1_2491380_2492286_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|102aa|up_8|NZ_CP041725.1_2492285_2492591_+	TIGR01573, cas2, CRISPR-associated endonuclease Cas2	cas10|758aa|up_7|NZ_CP041725.1_2492606_2494880_+	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	csm2gr11|142aa|up_6|NZ_CP041725.1_2494881_2495307_+	cd09647, Csm2_III-A, CRISPR/Cas system-associated protein Csm2	csm3gr7|215aa|up_5|NZ_CP041725.1_2495308_2495953_+	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm4gr5|303aa|up_4|NZ_CP041725.1_2495963_2496872_+	TIGR01903, Hypothetical_protein	csm5gr7|337aa|up_3|NZ_CP041725.1_2496875_2497886_+	cd09662, Csm5_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm5	csm6|330aa|up_2|NZ_CP041725.1_2497878_2498868_+	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm6|113aa|up_1|NZ_CP041725.1_2498846_2499185_+	TIGR02672, hypothetical_protein_SERP2456, CRISPR type III-A/MTUBE-associated protein Csm6	cas6|251aa|up_0|NZ_CP041725.1_2499181_2499934_+	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	NA|118aa|down_0|NZ_CP041725.1_2500785_2501139_+	NA	NA|209aa|down_1|NZ_CP041725.1_2501491_2502118_-	COG2091, Sfp, Phosphopantetheinyl transferase [Coenzyme metabolism]	NA|262aa|down_2|NZ_CP041725.1_2510749_2511535_+	pfam04507, DUF576, Csa1 family	NA|256aa|down_3|NZ_CP041725.1_2511625_2512393_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_4|NZ_CP041725.1_2512462_2513248_+	pfam04507, DUF576, Csa1 family	NA|262aa|down_5|NZ_CP041725.1_2513509_2514295_+	pfam04507, DUF576, Csa1 family	NA|442aa|down_6|NZ_CP041725.1_2514291_2515617_+	cd00519, Lipase_3, Lipase (class 3)	NA|109aa|down_7|NZ_CP041725.1_2515616_2515943_+	NA	NA|96aa|down_8|NZ_CP041725.1_2515945_2516233_+	NA	NA|321aa|down_9|NZ_CP041725.1_2516650_2517613_-	cd05291, HicDH_like, L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases
