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_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	1	369494-369592	1	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	TTTTAACATTTTTCTATGACGGGTCCCT	28	1	7	369522-369564|369522-369564|369522-369564|369522-369564|369522-369564|369522-369564|369522-369564	NZ_LT906460.1_163419-163461|NZ_LT906460.1_598739-598781|NZ_LT906460.1_1535057-1535099|NZ_LT906460.1_77711-77669|NZ_LT906460.1_2245559-2245601|NZ_LT906460.1_296901-296859|NZ_LT906460.1_1910403-1910361	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|563aa|up_9|NZ_LT906460.1_360792_362481_+	COG0672, FTR1, High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]	NA|249aa|up_8|NZ_LT906460.1_362587_363334_-	COG0805, TatC, Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]	NA|72aa|up_7|NZ_LT906460.1_363290_363506_-	PRK14861, tatA, twin arginine translocase protein A; Provisional	NA|130aa|up_6|NZ_LT906460.1_363616_364006_-	COG5562, COG5562, Phage envelope protein [General function prediction only]	NA|399aa|up_5|NZ_LT906460.1_364258_365455_+	cd08021, M20_Acy1_YhaA-like, M20 Peptidase aminoacylase 1 subfamily, includes Bacillus subtilis YhaA and Staphylococcus aureus amidohydrolase, SACOL0085	NA|68aa|up_4|NZ_LT906460.1_365591_365795_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|239aa|up_3|NZ_LT906460.1_365791_366508_+	pfam11368, DUF3169, Protein of unknown function (DUF3169)	NA|280aa|up_2|NZ_LT906460.1_366524_367364_+	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|209aa|up_1|NZ_LT906460.1_367363_367990_+	pfam13346, ABC2_membrane_5, ABC-2 family transporter protein	NA|374aa|up_0|NZ_LT906460.1_368134_369256_-	COG4292, COG4292, Predicted membrane protein [Function unknown]	NA|182aa|down_0|NZ_LT906460.1_369761_370307_-	TIGR02366, conserved_hypothetical_protein, probable dihydroxyacetone kinase regulator	NA|308aa|down_1|NZ_LT906460.1_370498_371422_+	COG1073, COG1073, Hydrolases of the alpha/beta superfamily [General function prediction only]	NA|238aa|down_2|NZ_LT906460.1_371581_372295_+	COG1985, RibD, Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]	NA|443aa|down_3|NZ_LT906460.1_372748_374077_-	cd17325, MFS_MdtG_SLC18_like, bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily of transporters	NA|393aa|down_4|NZ_LT906460.1_374624_375803_+	PRK05790, PRK05790, putative acyltransferase; Provisional	NA|249aa|down_5|NZ_LT906460.1_375878_376625_-	COG1878, COG1878, Kynurenine formamidase [Amino acid transport and metabolism]	NA|750aa|down_6|NZ_LT906460.1_376647_378897_-	PRK05222, PRK05222, 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional	NA|614aa|down_7|NZ_LT906460.1_378893_380735_-	PRK08645, PRK08645, bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	NA|392aa|down_8|NZ_LT906460.1_380688_381864_-	COG0626, MetC, Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]	NA|368aa|down_9|NZ_LT906460.1_381860_382964_-	PRK08247, PRK08247, methionine biosynthesis PLP-dependent protein
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	2	372604-372687	2	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	TTACACGAACTCAACGGAAGTGTTTTT	27	1	1	372631-372660	NZ_LT906460.1_1810465-1810494	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|130aa|up_9|NZ_LT906460.1_363616_364006_-	COG5562, COG5562, Phage envelope protein [General function prediction only]	NA|399aa|up_8|NZ_LT906460.1_364258_365455_+	cd08021, M20_Acy1_YhaA-like, M20 Peptidase aminoacylase 1 subfamily, includes Bacillus subtilis YhaA and Staphylococcus aureus amidohydrolase, SACOL0085	NA|68aa|up_7|NZ_LT906460.1_365591_365795_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|239aa|up_6|NZ_LT906460.1_365791_366508_+	pfam11368, DUF3169, Protein of unknown function (DUF3169)	NA|280aa|up_5|NZ_LT906460.1_366524_367364_+	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|209aa|up_4|NZ_LT906460.1_367363_367990_+	pfam13346, ABC2_membrane_5, ABC-2 family transporter protein	NA|374aa|up_3|NZ_LT906460.1_368134_369256_-	COG4292, COG4292, Predicted membrane protein [Function unknown]	NA|182aa|up_2|NZ_LT906460.1_369761_370307_-	TIGR02366, conserved_hypothetical_protein, probable dihydroxyacetone kinase regulator	NA|308aa|up_1|NZ_LT906460.1_370498_371422_+	COG1073, COG1073, Hydrolases of the alpha/beta superfamily [General function prediction only]	NA|238aa|up_0|NZ_LT906460.1_371581_372295_+	COG1985, RibD, Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]	NA|443aa|down_0|NZ_LT906460.1_372748_374077_-	cd17325, MFS_MdtG_SLC18_like, bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily of transporters	NA|393aa|down_1|NZ_LT906460.1_374624_375803_+	PRK05790, PRK05790, putative acyltransferase; Provisional	NA|249aa|down_2|NZ_LT906460.1_375878_376625_-	COG1878, COG1878, Kynurenine formamidase [Amino acid transport and metabolism]	NA|750aa|down_3|NZ_LT906460.1_376647_378897_-	PRK05222, PRK05222, 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional	NA|614aa|down_4|NZ_LT906460.1_378893_380735_-	PRK08645, PRK08645, bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	NA|392aa|down_5|NZ_LT906460.1_380688_381864_-	COG0626, MetC, Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]	NA|368aa|down_6|NZ_LT906460.1_381860_382964_-	PRK08247, PRK08247, methionine biosynthesis PLP-dependent protein	NA|280aa|down_7|NZ_LT906460.1_383629_384469_+	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|295aa|down_8|NZ_LT906460.1_384614_385499_+	COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]	NA|68aa|down_9|NZ_LT906460.1_385525_385729_+	COG4481, COG4481, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	3	406385-406465	3	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	AGAGAAACTGTGAAACAGTTTCAA	24	0	0	NA	NA	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|223aa|up_0|NZ_LT906460.1_405546_406215_-,NA|87aa|down_8|NZ_LT906460.1_414935_415196_+,NA|52aa|down_9|NZ_LT906460.1_415328_415484_+	NA|210aa|up_9|NZ_LT906460.1_393650_394280_-	NF033193, lipo_NDxxF, NDxxF motif lipoprotein	NA|539aa|up_8|NZ_LT906460.1_394318_395935_-	smart00959, Rho_N, Rho termination factor, N-terminal domain	NA|508aa|up_7|NZ_LT906460.1_396044_397568_-	PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F; Provisional	NA|190aa|up_6|NZ_LT906460.1_397585_398155_-	TIGR03137, AhpC, peroxiredoxin	NA|252aa|up_5|NZ_LT906460.1_398597_399353_+	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|565aa|up_4|NZ_LT906460.1_399643_401338_+	COG3666, COG3666, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|395aa|up_3|NZ_LT906460.1_401420_402605_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|463aa|up_2|NZ_LT906460.1_402925_404314_-	COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General function prediction only]	NA|319aa|up_1|NZ_LT906460.1_404471_405428_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|223aa|up_0|NZ_LT906460.1_405546_406215_-	NA	NA|136aa|down_0|NZ_LT906460.1_406833_407241_-	pfam11181, YflT, Heat induced stress protein YflT	NA|193aa|down_1|NZ_LT906460.1_407744_408323_+	PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated	NA|423aa|down_2|NZ_LT906460.1_408322_409591_+	TIGR03173, pbuX, xanthine permease	NA|489aa|down_3|NZ_LT906460.1_409628_411095_+	PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase; Reviewed	NA|514aa|down_4|NZ_LT906460.1_411120_412662_+	PRK00074, guaA, GMP synthase; Reviewed	NA|379aa|down_5|NZ_LT906460.1_412755_413892_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|206aa|down_6|NZ_LT906460.1_413976_414594_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|74aa|down_7|NZ_LT906460.1_414736_414958_+	pfam13413, HTH_25, Helix-turn-helix domain	NA|87aa|down_8|NZ_LT906460.1_414935_415196_+	NA	NA|52aa|down_9|NZ_LT906460.1_415328_415484_+	NA
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	4	449052-449160	4	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	TTTCACAGTTTCTACAGAAATGCAAGTTGGG	31	0	0	NA	NA	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|121aa|up_8|NZ_LT906460.1_440536_440899_-,NA|90aa|up_3|NZ_LT906460.1_445411_445681_-,NA	NA|382aa|up_9|NZ_LT906460.1_439072_440218_+	PRK07671, PRK07671, bifunctional cystathionine gamma-lyase/homocysteine desulfhydrase	NA|121aa|up_8|NZ_LT906460.1_440536_440899_-	NA	NA|342aa|up_7|NZ_LT906460.1_441132_442158_+	COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]	NA|220aa|up_6|NZ_LT906460.1_442157_442817_+	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|281aa|up_5|NZ_LT906460.1_442848_443691_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|417aa|up_4|NZ_LT906460.1_443985_445236_+	PRK06347, PRK06347, 1,4-beta-N-acetylmuramoylhydrolase	NA|90aa|up_3|NZ_LT906460.1_445411_445681_-	NA	NA|128aa|up_2|NZ_LT906460.1_445837_446221_+	cd04690, Nudix_Hydrolase_31, Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X	NA|263aa|up_1|NZ_LT906460.1_447026_447815_-	COG5438, COG5438, Predicted multitransmembrane protein [Function unknown]	NA|373aa|up_0|NZ_LT906460.1_447811_448930_-	COG5438, COG5438, Predicted multitransmembrane protein [Function unknown]	NA|295aa|down_0|NZ_LT906460.1_449292_450177_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|1500aa|down_1|NZ_LT906460.1_450354_454854_+	PRK11750, gltB, glutamate synthase subunit alpha; Provisional	NA|488aa|down_2|NZ_LT906460.1_454872_456336_+	PRK12810, gltD, glutamate synthase subunit beta; Reviewed	NA|476aa|down_3|NZ_LT906460.1_457027_458455_+	TIGR01992, phosphotransferase_system_trehalose_permease, PTS system, trehalose-specific IIBC component	NA|550aa|down_4|NZ_LT906460.1_458542_460192_+	TIGR02403, Trehalose-6-phosphate_hydrolase, alpha,alpha-phosphotrehalase	NA|243aa|down_5|NZ_LT906460.1_460207_460936_+	TIGR02404, Trehalose_operon_transcriptional_repressor, trehalose operon repressor, B	NA|174aa|down_6|NZ_LT906460.1_461652_462174_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|569aa|down_7|NZ_LT906460.1_462230_463937_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|106aa|down_8|NZ_LT906460.1_464025_464343_+	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|199aa|down_9|NZ_LT906460.1_464349_464946_+	PRK00076, recR, recombination protein RecR; Reviewed
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	5	744971-745069	5	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	TTAGATTTTTAATCTTTACTAGCTCTT	27	1	1	744998-745042	NZ_LT906460.1_745126-745170	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA,NA	NA|335aa|up_9|NZ_LT906460.1_731202_732207_+	COG1984, DUR1, Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]	NA|647aa|up_8|NZ_LT906460.1_732580_734521_+	COG1368, MdoB, Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]	NA|627aa|up_7|NZ_LT906460.1_734939_736820_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|593aa|up_6|NZ_LT906460.1_736834_738613_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|325aa|up_5|NZ_LT906460.1_738826_739801_+	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|506aa|up_4|NZ_LT906460.1_739793_741311_+	cd13610, PBP2_ChoS, Substrate-binding domain ChoS of an osmoregulated ABC-type transporter and related proteins; type 2 periplasmic-binding protein fold	NA|102aa|up_3|NZ_LT906460.1_741424_741730_-	COG3070, TfoX, Regulator of competence-specific genes [Transcription]	NA|352aa|up_2|NZ_LT906460.1_741897_742953_+	PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional	NA|180aa|up_1|NZ_LT906460.1_743257_743797_+	COG4502, COG4502, 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]	NA|305aa|up_0|NZ_LT906460.1_743889_744804_-	COG1597, LCB5, Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]	NA|502aa|down_0|NZ_LT906460.1_745465_746971_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|167aa|down_1|NZ_LT906460.1_747616_748117_-	PRK13258, PRK13258, 7-cyano-7-deazaguanine reductase; Provisional	NA|286aa|down_2|NZ_LT906460.1_748155_749013_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|133aa|down_3|NZ_LT906460.1_749822_750221_+	PRK03600, nrdI, class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA|702aa|down_4|NZ_LT906460.1_750183_752289_+	PRK07632, PRK07632, ribonucleotide-diphosphate reductase subunit alpha; Validated	NA|323aa|down_5|NZ_LT906460.1_752391_753360_+	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|324aa|down_6|NZ_LT906460.1_754029_755001_+	COG4606, CeuB, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|319aa|down_7|NZ_LT906460.1_754987_755944_+	COG4605, CeuC, ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]	NA|253aa|down_8|NZ_LT906460.1_755943_756702_+	COG4604, CeuD, ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]	NA|343aa|down_9|NZ_LT906460.1_756814_757843_+	COG4607, CeuA, ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	6	1154042-1154136	6	CRISPRCasFinder	no	cas3	RT,cas3,DEDDh,DinG,csa3,WYL	Unclear	AAGAGCTAGTAAAATTTAAAAATTTAAC	28	1	6	1154070-1154108|1154070-1154108|1154070-1154108|1154070-1154108|1154070-1154108|1154070-1154108	NZ_LT906460.1_767546-767584|NZ_LT906460.1_767613-767651|NZ_LT906460.1_767680-767718|NZ_LT906460.1_486278-486316|NZ_LT906460.1_490254-490292|NZ_LT906460.1_767747-767785	NA	1	1	Unclear	RT,cas3,DEDDh,DinG,csa3,WYL	NA|68aa|up_4|NZ_LT906460.1_1149388_1149592_+,NA	NA|425aa|up_9|NZ_LT906460.1_1142405_1143680_+	PRK09357, pyrC, dihydroorotase; Validated	NA|367aa|up_8|NZ_LT906460.1_1143681_1144782_+	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|1058aa|up_7|NZ_LT906460.1_1144774_1147948_+	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|231aa|up_6|NZ_LT906460.1_1148055_1148748_+	PRK00230, PRK00230, orotidine-5'-phosphate decarboxylase	NA|204aa|up_5|NZ_LT906460.1_1148747_1149359_+	PRK00455, pyrE, orotate phosphoribosyltransferase; Validated	NA|68aa|up_4|NZ_LT906460.1_1149388_1149592_+	NA	NA|134aa|up_3|NZ_LT906460.1_1150037_1150439_+	pfam06983, 3-dmu-9_3-mt, 3-demethylubiquinone-9 3-methyltransferase	NA|566aa|up_2|NZ_LT906460.1_1150601_1152299_-	COG1293, COG1293, Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]	NA|208aa|up_1|NZ_LT906460.1_1152605_1153229_+	PRK00300, gmk, guanylate kinase; Provisional	NA|71aa|up_0|NZ_LT906460.1_1153228_1153441_+	COG1758, RpoZ, DNA-directed RNA polymerase, subunit K/omega [Transcription]	NA|400aa|down_0|NZ_LT906460.1_1154234_1155434_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|803aa|down_1|NZ_LT906460.1_1155433_1157842_+	COG1198, PriA, Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]	NA|68aa|down_2|NZ_LT906460.1_1158084_1158288_-	COG2314, XynA, Predicted membrane protein [Function unknown]	NA|163aa|down_3|NZ_LT906460.1_1158501_1158990_+	PRK14595, PRK14595, peptide deformylase; Provisional	NA|311aa|down_4|NZ_LT906460.1_1158982_1159915_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|436aa|down_5|NZ_LT906460.1_1159911_1161219_+	PRK14902, PRK14902, 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB	NA|365aa|down_6|NZ_LT906460.1_1161221_1162316_+	PRK14455, PRK14455, ribosomal RNA large subunit methyltransferase N; Provisional	NA|248aa|down_7|NZ_LT906460.1_1162322_1163066_+	COG0631, PTC1, Serine/threonine protein phosphatase [Signal transduction mechanisms]	NA|675aa|down_8|NZ_LT906460.1_1163062_1165087_+	cd14014, STKc_PknB_like, Catalytic domain of bacterial Serine/Threonine kinases, PknB and similar proteins	NA|292aa|down_9|NZ_LT906460.1_1165924_1166800_+	COG1162, COG1162, Predicted GTPases [General function prediction only]
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	7	1689659-1689754	7	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	GCAAGTTGGGCAAGGGACCCGTCAT	25	1	12	1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729|1689684-1689729	NZ_LT906460.1_163476-163431|NZ_LT906460.1_598796-598751|NZ_LT906460.1_1303066-1303021|NZ_LT906460.1_1535114-1535069|NZ_LT906460.1_2007636-2007591|NZ_LT906460.1_77654-77699|NZ_LT906460.1_296844-296889|NZ_LT906460.1_1084013-1083968|NZ_LT906460.1_819156-819201|NZ_LT906460.1_1265603-1265648|NZ_LT906460.1_1910346-1910391|NZ_LT906460.1_2567357-2567402	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|498aa|up_0|NZ_LT906460.1_1687267_1688761_-,NA	NA|500aa|up_9|NZ_LT906460.1_1673647_1675147_-	COG0833, LysP, Amino acid transporters [Amino acid transport and metabolism]	NA|647aa|up_8|NZ_LT906460.1_1675756_1677697_-	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed	NA|307aa|up_7|NZ_LT906460.1_1678178_1679099_-	PRK08939, PRK08939, primosomal protein DnaI; Reviewed	NA|465aa|up_6|NZ_LT906460.1_1679098_1680493_-	COG3611, DnaB, Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]	NA|157aa|up_5|NZ_LT906460.1_1680493_1680964_-	COG1327, COG1327, Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]	NA|342aa|up_4|NZ_LT906460.1_1681434_1682460_-	PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase; Validated	NA|209aa|up_3|NZ_LT906460.1_1682911_1683538_-	PRK00081, coaE, dephospho-CoA kinase; Reviewed	NA|291aa|up_2|NZ_LT906460.1_1683553_1684426_-	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]	NA|878aa|up_1|NZ_LT906460.1_1684441_1687075_-	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|498aa|up_0|NZ_LT906460.1_1687267_1688761_-	NA	NA|556aa|down_0|NZ_LT906460.1_1689857_1691525_-	TIGR02966, Phosphate_regulon_sensor_protein_PhoR, phosphate regulon sensor kinase PhoR	NA|235aa|down_1|NZ_LT906460.1_1691521_1692226_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|423aa|down_2|NZ_LT906460.1_1692458_1693727_-	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|374aa|down_3|NZ_LT906460.1_1693768_1694890_-	PRK14035, PRK14035, citrate synthase; Provisional	NA|454aa|down_4|NZ_LT906460.1_1695238_1696600_+	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|586aa|down_5|NZ_LT906460.1_1697026_1698784_-	PRK06354, PRK06354, pyruvate kinase; Provisional	NA|323aa|down_6|NZ_LT906460.1_1698805_1699774_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|315aa|down_7|NZ_LT906460.1_1699951_1700896_-	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|286aa|down_8|NZ_LT906460.1_1700895_1701753_-	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|410aa|down_9|NZ_LT906460.1_1701883_1703113_-	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	8	1795566-1795663	8	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	AAATTTATTTTTGTCACACTCCC	23	0	0	NA	NA	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|77aa|up_3|NZ_LT906460.1_1792419_1792650_-,NA|146aa|up_2|NZ_LT906460.1_1793337_1793775_+,NA|148aa|up_1|NZ_LT906460.1_1793767_1794211_-,NA|101aa|down_0|NZ_LT906460.1_1795719_1796022_+,NA|303aa|down_4|NZ_LT906460.1_1798028_1798937_-	NA|153aa|up_9|NZ_LT906460.1_1785706_1786165_-	PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase; Provisional	NA|402aa|up_8|NZ_LT906460.1_1786177_1787383_-	PRK09311, PRK09311, bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	NA|211aa|up_7|NZ_LT906460.1_1787393_1788026_-	PRK09289, PRK09289, riboflavin synthase	NA|348aa|up_6|NZ_LT906460.1_1788033_1789077_-	TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD	NA|507aa|up_5|NZ_LT906460.1_1789454_1790975_-	COG4529, COG4529, Uncharacterized protein conserved in bacteria [Function unknown]	NA|286aa|up_4|NZ_LT906460.1_1791331_1792189_-	COG4193, LytD, Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]	NA|77aa|up_3|NZ_LT906460.1_1792419_1792650_-	NA	NA|146aa|up_2|NZ_LT906460.1_1793337_1793775_+	NA	NA|148aa|up_1|NZ_LT906460.1_1793767_1794211_-	NA	NA|238aa|up_0|NZ_LT906460.1_1794453_1795167_-	PRK12376, PRK12376, putative translaldolase; Provisional	NA|101aa|down_0|NZ_LT906460.1_1795719_1796022_+	NA	NA|123aa|down_1|NZ_LT906460.1_1796201_1796570_+	PRK14201, PRK14201, fluoride efflux transporter CrcB	NA|118aa|down_2|NZ_LT906460.1_1796563_1796917_+	COG0239, CrcB, Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]	NA|278aa|down_3|NZ_LT906460.1_1797074_1797908_-	cd19157, AKR_AKR5G1-3, AKR5G family of aldo-keto reductase (AKR)	NA|303aa|down_4|NZ_LT906460.1_1798028_1798937_-	NA	NA|399aa|down_5|NZ_LT906460.1_1799055_1800252_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|531aa|down_6|NZ_LT906460.1_1800621_1802214_+	PRK09344, PRK09344, phosphoenolpyruvate carboxykinase	NA|253aa|down_7|NZ_LT906460.1_1802696_1803455_-	COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]	NA|158aa|down_8|NZ_LT906460.1_1803459_1803933_-	TIGR02705, conserved_hypothetical_protein, nucleoside triphosphatase YtkD	NA|84aa|down_9|NZ_LT906460.1_1803998_1804250_+	pfam01809, Haemolytic, Haemolytic domain
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	9	1885858-1885999	9	CRISPRCasFinder	no	DEDDh	RT,cas3,DEDDh,DinG,csa3,WYL	Unclear	AAATTTTTCTATGACGGGTCCCT	23	2	17	1885881-1885928|1885881-1885928|1885881-1885928|1885881-1885928|1885881-1885928|1885881-1885928|1885881-1885928|1885881-1885928|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976|1885952-1885976	NZ_LT906460.1_163419-163466|NZ_LT906460.1_598739-598786|NZ_LT906460.1_1535057-1535104|NZ_LT906460.1_77711-77664|NZ_LT906460.1_296901-296854|NZ_LT906460.1_1083956-1084003|NZ_LT906460.1_819213-819166|NZ_LT906460.1_1910403-1910356|NZ_LT906460.1_163490-163514|NZ_LT906460.1_369593-369617|NZ_LT906460.1_598810-598834|NZ_LT906460.1_2007650-2007674|NZ_LT906460.1_2493330-2493354|NZ_LT906460.1_77640-77616|NZ_LT906460.1_819142-819118|NZ_LT906460.1_1636987-1636963|NZ_LT906460.1_2266334-2266310	NA	2	2	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|266aa|up_8|NZ_LT906460.1_1876416_1877214_-,NA|54aa|up_1|NZ_LT906460.1_1884145_1884307_-,NA|129aa|down_9|NZ_LT906460.1_1893262_1893649_-	NA|326aa|up_9|NZ_LT906460.1_1875089_1876067_+	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|266aa|up_8|NZ_LT906460.1_1876416_1877214_-	NA	NA|506aa|up_7|NZ_LT906460.1_1877222_1878740_-	COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]	NA|105aa|up_6|NZ_LT906460.1_1878754_1879069_-	pfam08838, DUF1811, Protein of unknown function (DUF1811)	NA|273aa|up_5|NZ_LT906460.1_1879046_1879865_-	PRK14135, recX, recombination regulator RecX; Provisional	NA|270aa|up_4|NZ_LT906460.1_1880521_1881331_-	PRK13481, PRK13481, glycosyltransferase; Provisional	NA|324aa|up_3|NZ_LT906460.1_1882043_1883015_-	COG4607, CeuA, ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|173aa|up_2|NZ_LT906460.1_1883493_1884012_-	cd03134, GATase1_PfpI_like, A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus	NA|54aa|up_1|NZ_LT906460.1_1884145_1884307_-	NA	NA|384aa|up_0|NZ_LT906460.1_1884549_1885701_+	TIGR04478, radical_SAM_superfamily_domain_protein, radical SAM/CxCxxxxC motif protein YfkAB	NA|177aa|down_0|NZ_LT906460.1_1886213_1886744_-	COG1607, COG1607, Acyl-CoA hydrolase [Lipid metabolism]	NA|415aa|down_1|NZ_LT906460.1_1886813_1888058_-	pfam02073, Peptidase_M29, Thermophilic metalloprotease (M29)	NA|67aa|down_2|NZ_LT906460.1_1888072_1888273_-	COG4840, COG4840, Uncharacterized protein conserved in bacteria [Function unknown]	NA|155aa|down_3|NZ_LT906460.1_1888419_1888884_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|92aa|down_4|NZ_LT906460.1_1888890_1889166_+	COG4980, GvpP, Gas vesicle protein [General function prediction only]	NA|406aa|down_5|NZ_LT906460.1_1889461_1890679_+	pfam03631, Virul_fac_BrkB, Virulence factor BrkB	NA|210aa|down_6|NZ_LT906460.1_1890887_1891517_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|348aa|down_7|NZ_LT906460.1_1891506_1892550_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|234aa|down_8|NZ_LT906460.1_1892546_1893248_-	COG4758, COG4758, Predicted membrane protein [Function unknown]	NA|129aa|down_9|NZ_LT906460.1_1893262_1893649_-	NA
GCF_900187055.1_50377_D01	NZ_LT906460	Staphylococcus simiae strain NCTC13838 chromosome 1	10	2314799-2314899	10	CRISPRCasFinder	no		RT,cas3,DEDDh,DinG,csa3,WYL	Orphan	GCATAAGAGCTCCTAACAACCGTAGATTGTAAG	33	0	0	NA	NA	NA	1	1	Orphan	RT,cas3,DEDDh,DinG,csa3,WYL	NA|190aa|up_0|NZ_LT906460.1_2314041_2314611_+,NA	NA|139aa|up_9|NZ_LT906460.1_2302818_2303235_-	pfam11070, DUF2871, Protein of unknown function (DUF2871)	NA|260aa|up_8|NZ_LT906460.1_2303783_2304563_-	cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like, classical (c) SDRs	NA|426aa|up_7|NZ_LT906460.1_2304788_2306066_-	COG1511, COG1511, Predicted membrane protein [Function unknown]	NA|210aa|up_6|NZ_LT906460.1_2306220_2306850_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|315aa|up_5|NZ_LT906460.1_2306891_2307836_+	cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family	NA|481aa|up_4|NZ_LT906460.1_2307993_2309436_-	TIGR01996, Includes:_Phosphotransferase_enzyme_IIB_component, PTS system, sucrose-specific IIBC component	NA|124aa|up_3|NZ_LT906460.1_2309591_2309963_+	pfam08349, DUF1722, Protein of unknown function (DUF1722)	NA|702aa|up_2|NZ_LT906460.1_2311270_2313376_+	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|141aa|up_1|NZ_LT906460.1_2313437_2313860_+	COG3871, COG3871, Uncharacterized stress protein (general stress protein 26) [General function prediction only]	NA|190aa|up_0|NZ_LT906460.1_2314041_2314611_+	NA	NA|426aa|down_0|NZ_LT906460.1_2314927_2316205_-	PRK11283, gltP, glutamate/aspartate:proton symporter; Provisional	NA|122aa|down_1|NZ_LT906460.1_2316388_2316754_-	pfam11337, DUF3139, Protein of unknown function (DUF3139)	NA|148aa|down_2|NZ_LT906460.1_2317144_2317588_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|390aa|down_3|NZ_LT906460.1_2317992_2319162_-	COG2223, NarK, Nitrate/nitrite transporter [Inorganic ion transport and metabolism]	NA|305aa|down_4|NZ_LT906460.1_2319530_2320445_+	COG5504, COG5504, Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]	NA|241aa|down_5|NZ_LT906460.1_2320423_2321146_+	cd01106, HTH_TipAL-Mta, Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA	NA|218aa|down_6|NZ_LT906460.1_2321519_2322173_-	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|345aa|down_7|NZ_LT906460.1_2322195_2323230_-	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|150aa|down_8|NZ_LT906460.1_2323257_2323707_-	pfam13185, GAF_2, GAF domain	NA|226aa|down_9|NZ_LT906460.1_2323725_2324403_-	pfam02665, Nitrate_red_gam, Nitrate reductase gamma subunit
