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_002591215.1_ASM259121v1	NZ_CP023970	Staphylococcus lugdunensis strain FDAARGOS_381 chromosome, complete genome	1	122407-122497	1	CRISPRCasFinder	no		cas3,DinG,DEDDh,csa3,WYL	Orphan	AAACTCGCCATGCTCGTTAAGTGC	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,csa3,WYL	NA,NA	NA|286aa|up_9|NZ_CP023970.1_109463_110321_+	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|315aa|up_8|NZ_CP023970.1_110322_111267_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|323aa|up_7|NZ_CP023970.1_111429_112398_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|587aa|up_6|NZ_CP023970.1_112415_114176_+	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|161aa|up_5|NZ_CP023970.1_114477_114960_+	COG1943, COG1943, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|453aa|up_4|NZ_CP023970.1_115467_116826_-	PRK11049, PRK11049, D-alanine/D-serine/glycine permease; Provisional	NA|373aa|up_3|NZ_CP023970.1_117167_118286_+	PRK14035, PRK14035, citrate synthase; Provisional	NA|423aa|up_2|NZ_CP023970.1_118333_119602_+	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|237aa|up_1|NZ_CP023970.1_119805_120516_+	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_CP023970.1_120515_122225_+	TIGR02966, Phosphate_regulon_sensor_protein_PhoR, phosphate regulon sensor kinase PhoR	NA|878aa|down_0|NZ_CP023970.1_122544_125178_+	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|291aa|down_1|NZ_CP023970.1_125194_126067_+	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]	NA|202aa|down_2|NZ_CP023970.1_126082_126688_+	PRK00081, coaE, dephospho-CoA kinase; Reviewed	NA|334aa|down_3|NZ_CP023970.1_126834_127836_+	PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase; Validated	NA|336aa|down_4|NZ_CP023970.1_128008_129016_+	PRK06256, PRK06256, biotin synthase; Validated	NA|157aa|down_5|NZ_CP023970.1_129332_129803_+	PRK00464, nrdR, transcriptional repressor NrdR	NA|459aa|down_6|NZ_CP023970.1_129803_131180_+	COG3611, DnaB, Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]	NA|307aa|down_7|NZ_CP023970.1_131179_132100_+	PRK08939, PRK08939, primosomal protein DnaI; Reviewed	NA|646aa|down_8|NZ_CP023970.1_132459_134397_+	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed	NA|498aa|down_9|NZ_CP023970.1_134860_136354_+	COG0833, LysP, Amino acid transporters [Amino acid transport and metabolism]
GCF_002591215.1_ASM259121v1	NZ_CP023970	Staphylococcus lugdunensis strain FDAARGOS_381 chromosome, complete genome	2	552829-552915	2	CRISPRCasFinder	no		cas3,DinG,DEDDh,csa3,WYL	Orphan	GAAATTCGACAAACAAAGCAAGTTGGGGTG	30	1	1	552859-552885	NZ_CP023970.1_1110254-1110228	NA	1	1	Orphan	cas3,DinG,DEDDh,csa3,WYL	NA,NA	NA|241aa|up_9|NZ_CP023970.1_541211_541934_-	PRK00358, pyrH, uridylate kinase; Provisional	NA|293aa|up_8|NZ_CP023970.1_542070_542949_-	PRK09377, tsf, elongation factor Ts; Provisional	NA|263aa|up_7|NZ_CP023970.1_543132_543921_-	PRK05299, rpsB, 30S ribosomal protein S2; Provisional	NA|258aa|up_6|NZ_CP023970.1_544139_544913_-	PRK04158, PRK04158, GTP-sensing pleiotropic transcriptional regulator CodY	NA|468aa|up_5|NZ_CP023970.1_544934_546338_-	PRK05201, hslU, ATP-dependent protease ATPase subunit HslU	NA|181aa|up_4|NZ_CP023970.1_546384_546927_-	PRK05456, PRK05456, ATP-dependent protease subunit HslV	NA|298aa|up_3|NZ_CP023970.1_546927_547821_-	TIGR02224, Tyrosine_recombinase_XerC, tyrosine recombinase XerC	NA|436aa|up_2|NZ_CP023970.1_547952_549260_-	PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed	NA|692aa|up_1|NZ_CP023970.1_549311_551387_-	PRK05582, PRK05582, type I DNA topoisomerase	NA|291aa|up_0|NZ_CP023970.1_551552_552425_-	pfam02481, DNA_processg_A, DNA recombination-mediator protein A	NA|412aa|down_0|NZ_CP023970.1_553083_554319_-	pfam02388, FemAB, FemAB family	NA|303aa|down_1|NZ_CP023970.1_554479_555388_-	PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha; Validated	NA|389aa|down_2|NZ_CP023970.1_555409_556576_-	PRK00696, sucC, ADP-forming succinate--CoA ligase subunit beta	NA|256aa|down_3|NZ_CP023970.1_556686_557454_-	cd07182, RNase_HII_bacteria_HII_like, Bacterial Ribonuclease HII-like	NA|295aa|down_4|NZ_CP023970.1_557437_558322_-	PRK09563, rbgA, GTPase YlqF; Reviewed	NA|864aa|down_5|NZ_CP023970.1_558578_561170_+	pfam09586, YfhO, Bacterial membrane protein YfhO	NA|869aa|down_6|NZ_CP023970.1_561174_563781_+	COG4485, COG4485, Predicted membrane protein [Function unknown]	NA|117aa|down_7|NZ_CP023970.1_564027_564378_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|246aa|down_8|NZ_CP023970.1_564483_565221_-	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed	NA|167aa|down_9|NZ_CP023970.1_565220_565721_-	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional
GCF_002591215.1_ASM259121v1	NZ_CP023970	Staphylococcus lugdunensis strain FDAARGOS_381 chromosome, complete genome	3	1069060-1069140	3	CRISPRCasFinder	no		cas3,DinG,DEDDh,csa3,WYL	Orphan	GGGGCCCCAGCACAAAGAAATGC	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,csa3,WYL	NA|34aa|up_9|NZ_CP023970.1_1061507_1061609_-,NA|227aa|up_5|NZ_CP023970.1_1064884_1065565_+,NA|99aa|up_1|NZ_CP023970.1_1067285_1067582_-,NA|151aa|up_0|NZ_CP023970.1_1067707_1068160_-,NA	NA|34aa|up_9|NZ_CP023970.1_1061507_1061609_-	NA	NA|311aa|up_8|NZ_CP023970.1_1061716_1062649_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|147aa|up_7|NZ_CP023970.1_1062873_1063314_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|291aa|up_6|NZ_CP023970.1_1063695_1064568_+	PRK00281, PRK00281, undecaprenyl-diphosphate phosphatase	NA|227aa|up_5|NZ_CP023970.1_1064884_1065565_+	NA	NA|149aa|up_4|NZ_CP023970.1_1065569_1066016_+	PRK00124, PRK00124, YaiI/YqxD family protein	NA|189aa|up_3|NZ_CP023970.1_1066031_1066598_+	TIGR00730, LOG_family_protein_YJL055W, TIGR00730 family protein	NA|181aa|up_2|NZ_CP023970.1_1066629_1067172_-	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|99aa|up_1|NZ_CP023970.1_1067285_1067582_-	NA	NA|151aa|up_0|NZ_CP023970.1_1067707_1068160_-	NA	NA|162aa|down_0|NZ_CP023970.1_1069509_1069995_-	COG2839, COG2839, Uncharacterized protein conserved in bacteria [Function unknown]	NA|406aa|down_1|NZ_CP023970.1_1069996_1071214_-	cd17471, MFS_Set, Sugar efflux transporter (Set) family of the Major Facilitator Superfamily of transporters	NA|285aa|down_2|NZ_CP023970.1_1071299_1072154_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|205aa|down_3|NZ_CP023970.1_1072661_1073276_-	COG2306, COG2306, Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]	NA|156aa|down_4|NZ_CP023970.1_1073659_1074127_-	cd06121, cupin_YML079wp, Saccharomyces cerevisiae YML079wp and related proteins, cupin domain	NA|239aa|down_5|NZ_CP023970.1_1074126_1074843_-	PRK12378, PRK12378, YebC/PmpR family DNA-binding transcriptional regulator	NA|120aa|down_6|NZ_CP023970.1_1075076_1075436_-	TIGR01889, Pleiotropic_Regulator_Of_Virulence, staphylococcal accessory regulator family	NA|715aa|down_7|NZ_CP023970.1_1075579_1077724_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|218aa|down_8|NZ_CP023970.1_1078032_1078686_-	COG0670, COG0670, Integral membrane protein, interacts with FtsH [General function prediction only]	NA|268aa|down_9|NZ_CP023970.1_1079053_1079857_+	COG3942, COG3942, Surface antigen [General function prediction only]
GCF_002591215.1_ASM259121v1	NZ_CP023970	Staphylococcus lugdunensis strain FDAARGOS_381 chromosome, complete genome	4	1653199-1653289	4	CRISPRCasFinder	no		cas3,DinG,DEDDh,csa3,WYL	Orphan	CCCCAACTTGCTTTGCTTGATGAATTTCTTTTT	33	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,csa3,WYL	NA|107aa|up_9|NZ_CP023970.1_1643159_1643480_+,NA|90aa|up_8|NZ_CP023970.1_1643543_1643813_+,NA|193aa|up_5|NZ_CP023970.1_1645980_1646559_-,NA|101aa|down_5|NZ_CP023970.1_1661800_1662103_+	NA|107aa|up_9|NZ_CP023970.1_1643159_1643480_+	NA	NA|90aa|up_8|NZ_CP023970.1_1643543_1643813_+	NA	NA|266aa|up_7|NZ_CP023970.1_1644186_1644984_-	pfam00797, Acetyltransf_2, N-acetyltransferase	NA|252aa|up_6|NZ_CP023970.1_1645121_1645877_-	PRK12826, PRK12826, SDR family oxidoreductase	NA|193aa|up_5|NZ_CP023970.1_1645980_1646559_-	NA	NA|512aa|up_4|NZ_CP023970.1_1646806_1648342_+	TIGR02002, PTS_system_glucose-specific_IIABC_component, PTS system, glucose-specific IIBC component	NA|257aa|up_3|NZ_CP023970.1_1648547_1649318_-	cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR	NA|478aa|up_2|NZ_CP023970.1_1649338_1650772_-	cd07080, ALDH_Acyl-CoA-Red_LuxC, Acyl-CoA reductase LuxC	NA|356aa|up_1|NZ_CP023970.1_1650784_1651852_-	pfam04443, LuxE, Acyl-protein synthetase, LuxE	NA|191aa|up_0|NZ_CP023970.1_1652353_1652926_+	COG4721, COG4721, ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]	NA|459aa|down_0|NZ_CP023970.1_1653355_1654732_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|1011aa|down_1|NZ_CP023970.1_1654744_1657777_-	cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN binding domain, group 4	NA|299aa|down_2|NZ_CP023970.1_1657854_1658751_-	COG1477, ApbE, Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]	NA|171aa|down_3|NZ_CP023970.1_1659070_1659583_+	COG3247, HdeD, Uncharacterized conserved protein [Function unknown]	NA|400aa|down_4|NZ_CP023970.1_1660095_1661295_+	COG1168, MalY, Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]	NA|101aa|down_5|NZ_CP023970.1_1661800_1662103_+	NA	NA|451aa|down_6|NZ_CP023970.1_1662607_1663960_+	TIGR01350, Dihydrolipoyl_dehydrogenase, dihydrolipoamide dehydrogenase	NA|316aa|down_7|NZ_CP023970.1_1664048_1664996_+	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_CP023970.1_1665011_1666052_+	COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]	NA|431aa|down_9|NZ_CP023970.1_1666069_1667362_+	PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed
GCF_002591215.1_ASM259121v1	NZ_CP023970	Staphylococcus lugdunensis strain FDAARGOS_381 chromosome, complete genome	5	2446968-2447057	5	CRISPRCasFinder	no		cas3,DinG,DEDDh,csa3,WYL	Orphan	TGATTGAGAAGTCAGTCGAAAAAC	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,csa3,WYL	NA,NA|49aa|down_2|NZ_CP023970.1_2447610_2447757_+,NA|70aa|down_3|NZ_CP023970.1_2447749_2447959_+,NA|115aa|down_9|NZ_CP023970.1_2452596_2452941_+	NA|48aa|up_9|NZ_CP023970.1_2437080_2437224_-	smart00794, AgrD, Staphylococcal AgrD protein	NA|189aa|up_8|NZ_CP023970.1_2437226_2437793_-	smart00793, AgrB, Accessory gene regulator B	NA|262aa|up_7|NZ_CP023970.1_2438420_2439206_-	cd07583, nitrilase_5, Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases)	NA|208aa|up_6|NZ_CP023970.1_2439340_2439964_-	COG3560, FMR2, Predicted oxidoreductase related to nitroreductase [General function prediction only]	NA|503aa|up_5|NZ_CP023970.1_2440157_2441666_+	pfam05297, Herpes_LMP1, Herpesvirus latent membrane protein 1 (LMP1)	NA|247aa|up_4|NZ_CP023970.1_2442084_2442825_-	pfam02517, Abi, CAAX protease self-immunity	NA|95aa|up_3|NZ_CP023970.1_2443005_2443290_+	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|541aa|up_2|NZ_CP023970.1_2443349_2444972_+	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|391aa|up_1|NZ_CP023970.1_2445040_2446213_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|225aa|up_0|NZ_CP023970.1_2446226_2446901_-	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain	NA|73aa|down_0|NZ_CP023970.1_2447073_2447292_+	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|106aa|down_1|NZ_CP023970.1_2447296_2447614_+	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|49aa|down_2|NZ_CP023970.1_2447610_2447757_+	NA	NA|70aa|down_3|NZ_CP023970.1_2447749_2447959_+	NA	NA|108aa|down_4|NZ_CP023970.1_2447961_2448285_+	pfam07342, DUF1474, Protein of unknown function (DUF1474)	NA|290aa|down_5|NZ_CP023970.1_2448348_2449218_+	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|570aa|down_6|NZ_CP023970.1_2449231_2450941_+	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|122aa|down_7|NZ_CP023970.1_2451288_2451654_+	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_CP023970.1_2451667_2452309_+	pfam16560, SAPI, Putative mobile pathogenicity island	NA|115aa|down_9|NZ_CP023970.1_2452596_2452941_+	NA
