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_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	1	77342-77627	1	PILER-CR	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	TCAAAGAGTAACTAAAGAAGGCAATACAATTGTTGAATTTAGTGATGGAAATACAATTACTATA	64	0	0	NA	NA	NA	2	2	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA|42aa|down_7|NZ_CP041726.1_86291_86417_-	NA|386aa|up_9|NZ_CP041726.1_58203_59361_+	TIGR04012, poly_gGlu_PgsB, poly-gamma-glutamate synthase PgsB/CapB	NA|151aa|up_8|NZ_CP041726.1_59362_59815_+	TIGR04011, poly_gGlu_PgsC, poly-gamma-glutamate biosynthesis protein PgsC/CapC	NA|355aa|up_7|NZ_CP041726.1_59838_60903_+	smart00854, PGA_cap, Bacterial capsule synthesis protein PGA_cap	NA|533aa|up_6|NZ_CP041726.1_61059_62658_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|496aa|up_5|NZ_CP041726.1_62934_64422_+	cd07808, FGGY_D-XK_EcXK-like, Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases	NA|348aa|up_4|NZ_CP041726.1_64907_65951_+	COG1299, FruA, Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]	NA|227aa|up_3|NZ_CP041726.1_65953_66634_+	COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]	NA|299aa|up_2|NZ_CP041726.1_66647_67544_+	TIGR00718, Probable_L-serine_dehydratase_alpha_chain, L-serine dehydratase, iron-sulfur-dependent, alpha subunit	NA|165aa|up_1|NZ_CP041726.1_68047_68542_-	COG1247, COG1247, Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]	NA|202aa|up_0|NZ_CP041726.1_68692_69298_+	TIGR01076, Uncharacterized_protein_YhcS, LPXTG-site transpeptidase (sortase) family protein	NA|266aa|down_0|NZ_CP041726.1_78959_79757_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|331aa|down_1|NZ_CP041726.1_79823_80816_-	PRK12480, PRK12480, D-lactate dehydrogenase; Provisional	NA|220aa|down_2|NZ_CP041726.1_81169_81829_+	cd02149, NfsB-like, nitroreductase similar to Escherichia coli NfsB	NA|278aa|down_3|NZ_CP041726.1_82024_82858_-	pfam04650, YSIRK_signal, YSIRK type signal peptide	NA|498aa|down_4|NZ_CP041726.1_83257_84751_+	cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like	NA|270aa|down_5|NZ_CP041726.1_84819_85629_-	COG2514, COG2514, Predicted ring-cleavage extradiol dioxygenase [General function prediction only]	NA|94aa|down_6|NZ_CP041726.1_85955_86237_-	pfam14542, Acetyltransf_CG, GCN5-related N-acetyl-transferase	NA|42aa|down_7|NZ_CP041726.1_86291_86417_-	NA	NA|244aa|down_8|NZ_CP041726.1_86516_87248_+	COG0501, HtpX, Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]	NA|315aa|down_9|NZ_CP041726.1_87496_88441_+	pfam07901, DUF1672, Protein of unknown function (DUF1672)
GCF_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	2	305911-305995	1	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	TTCCACGAACAACGCAAGTTGGGGTGG	27	1	3	305938-305968|305938-305968|305938-305968	NZ_CP041726.1_1368378-1368408|NZ_CP041726.1_1402214-1402184|NZ_CP041726.1_348565-348595	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA|130aa|down_2|NZ_CP041726.1_308015_308405_-	NA|457aa|up_9|NZ_CP041726.1_293779_295150_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|225aa|up_8|NZ_CP041726.1_295142_295817_-	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_7|NZ_CP041726.1_295944_297006_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|223aa|up_6|NZ_CP041726.1_297002_297671_+	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_5|NZ_CP041726.1_297761_298715_-	cd06259, YdcF-like, YdcF-like	NA|458aa|up_4|NZ_CP041726.1_299448_300822_+	COG4640, COG4640, Predicted membrane protein [Function unknown]	NA|402aa|up_3|NZ_CP041726.1_300923_302129_+	cd17320, MFS_MdfA_MDR_like, Multidrug transporter MdfA and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|184aa|up_2|NZ_CP041726.1_302570_303122_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|216aa|up_1|NZ_CP041726.1_303254_303902_+	COG1566, EmrA, Multidrug resistance efflux pump [Defense mechanisms]	NA|655aa|up_0|NZ_CP041726.1_303914_305879_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|236aa|down_0|NZ_CP041726.1_306158_306866_-	COG1033, COG1033, Predicted exporters of the RND superfamily [General function prediction only]	NA|303aa|down_1|NZ_CP041726.1_307074_307983_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|130aa|down_2|NZ_CP041726.1_308015_308405_-	NA	NA|156aa|down_3|NZ_CP041726.1_308410_308878_-	pfam13279, 4HBT_2, Thioesterase-like superfamily	NA|316aa|down_4|NZ_CP041726.1_308996_309944_+	cd12831, TmCorA-like_u2, Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family	NA|351aa|down_5|NZ_CP041726.1_309989_311042_+	PRK05437, PRK05437, isopentenyl pyrophosphate isomerase; Provisional	NA|203aa|down_6|NZ_CP041726.1_311166_311775_-	cd00540, AAG, Alkyladenine DNA glycosylase catalyzes the first step in base excision repair	NA|72aa|down_7|NZ_CP041726.1_312012_312228_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|337aa|down_8|NZ_CP041726.1_312782_313793_+	cd09019, galactose_mutarotase_like, galactose mutarotase_like	NA|218aa|down_9|NZ_CP041726.1_313868_314522_-	COG2258, COG2258, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	3	594669-594753	2	CRISPRCasFinder	no	csa3	WYL,csa3,DEDDh,cas3,DinG	Type I-A	CAACGCAAGTTGGGGTGGGGCCCCAACA	28	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA|70aa|down_7|NZ_CP041726.1_600498_600708_+,NA|135aa|down_8|NZ_CP041726.1_600711_601116_+,NA|68aa|down_9|NZ_CP041726.1_601120_601324_+	NA|317aa|up_9|NZ_CP041726.1_584274_585225_+	cd01542, PBP1_TreR-like, ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators	NA|495aa|up_8|NZ_CP041726.1_585324_586809_+	TIGR01322, Sucrose-6-phosphate_hydrolase, sucrose-6-phosphate hydrolase	NA|325aa|up_7|NZ_CP041726.1_586809_587784_+	cd01167, bac_FRK, Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into glucose-6-phosphate	NA|239aa|up_6|NZ_CP041726.1_587875_588592_-	COG3279, LytT, Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]	NA|430aa|up_5|NZ_CP041726.1_588604_589894_-	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|48aa|up_4|NZ_CP041726.1_589915_590059_-	smart00794, AgrD, Staphylococcal AgrD protein	NA|216aa|up_3|NZ_CP041726.1_590061_590709_-	smart00793, AgrB, Accessory gene regulator B	NA|262aa|up_2|NZ_CP041726.1_591255_592041_-	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|208aa|up_1|NZ_CP041726.1_592175_592799_-	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|503aa|up_0|NZ_CP041726.1_592992_594501_+	pfam05297, Herpes_LMP1, Herpesvirus latent membrane protein 1 (LMP1)	NA|247aa|down_0|NZ_CP041726.1_595042_595783_-	pfam02517, Abi, CAAX protease self-immunity	NA|95aa|down_1|NZ_CP041726.1_595963_596248_+	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|541aa|down_2|NZ_CP041726.1_596307_597930_+	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|392aa|down_3|NZ_CP041726.1_598044_599220_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|176aa|down_4|NZ_CP041726.1_599228_599756_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|60aa|down_5|NZ_CP041726.1_599988_600168_+	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|105aa|down_6|NZ_CP041726.1_600171_600486_+	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|70aa|down_7|NZ_CP041726.1_600498_600708_+	NA	NA|135aa|down_8|NZ_CP041726.1_600711_601116_+	NA	NA|68aa|down_9|NZ_CP041726.1_601120_601324_+	NA
GCF_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	4	1267335-1267420	3	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	GAAATTCGACAAACAAAGCAAGTTGGGGT	29	1	1	1267364-1267391	NZ_CP041726.1_1387176-1387149	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA	NA|241aa|up_9|NZ_CP041726.1_1255717_1256440_-	PRK00358, pyrH, uridylate kinase; Provisional	NA|293aa|up_8|NZ_CP041726.1_1256576_1257455_-	PRK09377, tsf, elongation factor Ts; Provisional	NA|263aa|up_7|NZ_CP041726.1_1257638_1258427_-	PRK05299, rpsB, 30S ribosomal protein S2; Provisional	NA|258aa|up_6|NZ_CP041726.1_1258645_1259419_-	PRK04158, PRK04158, GTP-sensing pleiotropic transcriptional regulator CodY	NA|468aa|up_5|NZ_CP041726.1_1259440_1260844_-	PRK05201, hslU, ATP-dependent protease ATPase subunit HslU	NA|181aa|up_4|NZ_CP041726.1_1260890_1261433_-	PRK05456, PRK05456, ATP-dependent protease subunit HslV	NA|298aa|up_3|NZ_CP041726.1_1261433_1262327_-	TIGR02224, Tyrosine_recombinase_XerC, tyrosine recombinase XerC	NA|436aa|up_2|NZ_CP041726.1_1262458_1263766_-	PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed	NA|690aa|up_1|NZ_CP041726.1_1263817_1265887_-	PRK05582, PRK05582, type I DNA topoisomerase	NA|291aa|up_0|NZ_CP041726.1_1266058_1266931_-	pfam02481, DNA_processg_A, DNA recombination-mediator protein A	NA|412aa|down_0|NZ_CP041726.1_1267589_1268825_-	pfam02388, FemAB, FemAB family	NA|383aa|down_1|NZ_CP041726.1_1268838_1269987_-	pfam01476, LysM, LysM domain	NA|303aa|down_2|NZ_CP041726.1_1270182_1271091_-	PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha; Validated	NA|389aa|down_3|NZ_CP041726.1_1271112_1272279_-	PRK00696, sucC, ADP-forming succinate--CoA ligase subunit beta	NA|256aa|down_4|NZ_CP041726.1_1272389_1273157_-	cd07182, RNase_HII_bacteria_HII_like, Bacterial Ribonuclease HII-like	NA|295aa|down_5|NZ_CP041726.1_1273140_1274025_-	PRK09563, rbgA, GTPase YlqF; Reviewed	NA|864aa|down_6|NZ_CP041726.1_1274281_1276873_+	pfam09586, YfhO, Bacterial membrane protein YfhO	NA|869aa|down_7|NZ_CP041726.1_1276877_1279484_+	COG4485, COG4485, Predicted membrane protein [Function unknown]	NA|117aa|down_8|NZ_CP041726.1_1279685_1280036_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|246aa|down_9|NZ_CP041726.1_1280141_1280879_-	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed
GCF_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	5	1731356-1731435	4	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	CCAAGCAAAGCAAGTTGGGGTGG	23	1	7	1731379-1731412|1731379-1731412|1731379-1731412|1731379-1731412|1731379-1731412|1731379-1731412|1731379-1731412	NZ_CP041726.1_633354-633321|NZ_CP041726.1_794336-794369|NZ_CP041726.1_2223217-2223184|NZ_CP041726.1_479509-479542|NZ_CP041726.1_614858-614891|NZ_CP041726.1_479566-479599|NZ_CP041726.1_784236-784203	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA,NA	NA|261aa|up_9|NZ_CP041726.1_1719188_1719971_-	COG4604, CeuD, ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]	NA|320aa|up_8|NZ_CP041726.1_1719967_1720927_-	COG4605, CeuC, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|326aa|up_7|NZ_CP041726.1_1720907_1721885_-	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|323aa|up_6|NZ_CP041726.1_1722253_1723222_-	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|702aa|up_5|NZ_CP041726.1_1723461_1725567_-	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|133aa|up_4|NZ_CP041726.1_1725529_1725928_-	PRK03600, nrdI, class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA|290aa|up_3|NZ_CP041726.1_1726801_1727671_+	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_CP041726.1_1727683_1728184_+	PRK13258, PRK13258, 7-cyano-7-deazaguanine reductase; Provisional	NA|502aa|up_1|NZ_CP041726.1_1728468_1729974_+	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|305aa|up_0|NZ_CP041726.1_1730301_1731216_+	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|177aa|down_0|NZ_CP041726.1_1731589_1732120_-	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|352aa|down_1|NZ_CP041726.1_1732357_1733413_-	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|505aa|down_2|NZ_CP041726.1_1733535_1735050_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|505aa|down_3|NZ_CP041726.1_1735330_1736845_-	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_CP041726.1_1736841_1737810_-	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|594aa|down_5|NZ_CP041726.1_1738026_1739808_-	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|628aa|down_6|NZ_CP041726.1_1739821_1741705_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|272aa|down_7|NZ_CP041726.1_1741816_1742632_+	COG0428, COG0428, Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]	NA|646aa|down_8|NZ_CP041726.1_1742799_1744737_-	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|335aa|down_9|NZ_CP041726.1_1745287_1746292_-	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
GCF_008728775.1_ASM872877v1	NZ_CP041726	Staphylococcus lugdunensis strain SL118 chromosome, complete genome	6	1777442-1777531	5	CRISPRCasFinder	no		WYL,csa3,DEDDh,cas3,DinG	Orphan	CAGCACAAAGAAATGCACCAAGCATTTCTACG	32	0	0	NA	NA	NA	1	1	Orphan	WYL,csa3,DEDDh,cas3,DinG	NA|72aa|up_6|NZ_CP041726.1_1773354_1773570_-,NA|99aa|up_2|NZ_CP041726.1_1775660_1775957_-,NA|151aa|up_1|NZ_CP041726.1_1776082_1776535_-,NA|230aa|up_0|NZ_CP041726.1_1776745_1777435_+,NA	NA|311aa|up_9|NZ_CP041726.1_1770070_1771003_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|147aa|up_8|NZ_CP041726.1_1771227_1771668_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|291aa|up_7|NZ_CP041726.1_1772049_1772922_+	PRK00281, PRK00281, undecaprenyl-diphosphate phosphatase	NA|72aa|up_6|NZ_CP041726.1_1773354_1773570_-	NA	NA|149aa|up_5|NZ_CP041726.1_1773944_1774391_+	PRK00124, PRK00124, YaiI/YqxD family protein	NA|189aa|up_4|NZ_CP041726.1_1774406_1774973_+	TIGR00730, LOG_family_protein_YJL055W, TIGR00730 family protein	NA|181aa|up_3|NZ_CP041726.1_1775004_1775547_-	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|99aa|up_2|NZ_CP041726.1_1775660_1775957_-	NA	NA|151aa|up_1|NZ_CP041726.1_1776082_1776535_-	NA	NA|230aa|up_0|NZ_CP041726.1_1776745_1777435_+	NA	NA|162aa|down_0|NZ_CP041726.1_1777884_1778370_-	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|406aa|down_1|NZ_CP041726.1_1778371_1779589_-	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|285aa|down_2|NZ_CP041726.1_1779674_1780529_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|207aa|down_3|NZ_CP041726.1_1780979_1781600_-	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|156aa|down_4|NZ_CP041726.1_1781977_1782445_-	cd06121, cupin_YML079wp, Saccharomyces cerevisiae YML079wp and related proteins, cupin domain	NA|239aa|down_5|NZ_CP041726.1_1782444_1783161_-	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|120aa|down_6|NZ_CP041726.1_1783394_1783754_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|715aa|down_7|NZ_CP041726.1_1783897_1786042_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|218aa|down_8|NZ_CP041726.1_1786349_1787003_-	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|268aa|down_9|NZ_CP041726.1_1787370_1788174_+	COG3942, COG3942, Surface antigen [General function prediction only]
