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
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	1	132348-132460	1	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	CGGGTCGCGACCGGGTCCGGCCGGTGGGCCGGGTTCCGT	39	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|211aa|up_3|AP018920.1_128788_129421_+,NA|686aa|down_4|AP018920.1_136358_138416_-	NA|330aa|up_9|AP018920.1_122353_123343_+	pfam12833, HTH_18, Helix-turn-helix domain	NA|338aa|up_8|AP018920.1_123487_124501_-	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|270aa|up_7|AP018920.1_124723_125533_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|385aa|up_6|AP018920.1_125529_126684_+	COG2141, COG2141, Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]	NA|113aa|up_5|AP018920.1_126743_127082_-	cd12952, MMP_ACEL2062, Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein	NA|481aa|up_4|AP018920.1_127098_128541_-	pfam13845, Septum_form, Septum formation	NA|211aa|up_3|AP018920.1_128788_129421_+	NA	NA|388aa|up_2|AP018920.1_129424_130588_+	pfam03738, GSP_synth, Glutathionylspermidine synthase preATP-grasp	NA|151aa|up_1|AP018920.1_130666_131119_+	pfam03994, DUF350, Domain of Unknown Function (DUF350)	NA|341aa|up_0|AP018920.1_131153_132176_-	TIGR04516, probable_glycosyltransferase, glycosyltransferase, activator-dependent family	NA|280aa|down_0|AP018920.1_132471_133311_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|202aa|down_1|AP018920.1_133598_134204_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|362aa|down_2|AP018920.1_134208_135294_+	PRK12324, PRK12324, decaprenyl-phosphate phosphoribosyltransferase	NA|316aa|down_3|AP018920.1_135316_136264_-	cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs	NA|686aa|down_4|AP018920.1_136358_138416_-	NA	NA|430aa|down_5|AP018920.1_138688_139978_+	COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]	NA|198aa|down_6|AP018920.1_139970_140564_+	cd03358, LbH_WxcM_N_like, WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain	NA|399aa|down_7|AP018920.1_140524_141721_-	cd03794, GT4_WbuB-like, Escherichia coli WbuB and similar proteins	NA|341aa|down_8|AP018920.1_141719_142742_+	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase	NA|493aa|down_9|AP018920.1_142738_144217_+	COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	3	1284517-1284602	2	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	CGCCGGGCTGAGCTGCGGCGCGGTCGCCGC	30	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|81aa|up_9|AP018920.1_1274678_1274921_-,NA	NA|81aa|up_9|AP018920.1_1274678_1274921_-	NA	NA|391aa|up_8|AP018920.1_1275043_1276216_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|363aa|up_7|AP018920.1_1276224_1277313_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|184aa|up_6|AP018920.1_1277699_1278251_+	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|369aa|up_5|AP018920.1_1278283_1279390_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|235aa|up_4|AP018920.1_1279386_1280091_+	cd16334, LppX-like, family includes lipoproteins LppX, LprA, LprF and LprG from Mycobacterium tuberculosis	NA|230aa|up_3|AP018920.1_1280145_1280835_+	COG2884, FtsE, Predicted ATPase involved in cell division [Cell division and chromosome partitioning]	NA|301aa|up_2|AP018920.1_1280835_1281738_+	COG2177, FtsX, Cell division protein [Cell division and chromosome partitioning]	NA|162aa|up_1|AP018920.1_1281766_1282252_+	PRK05422, smpB, SsrA-binding protein SmpB	NA|316aa|up_0|AP018920.1_1282326_1283274_+	pfam04909, Amidohydro_2, Amidohydrolase	NA|64aa|down_0|AP018920.1_1285445_1285637_+	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|243aa|down_1|AP018920.1_1285710_1286439_-	pfam01988, VIT1, VIT family	NA|489aa|down_2|AP018920.1_1286762_1288229_+	COG3046, COG3046, Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]	NA|559aa|down_3|AP018920.1_1288337_1290014_-	cd00085, HNHc, HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins	NA|219aa|down_4|AP018920.1_1290237_1290894_+	COG2259, COG2259, Predicted membrane protein [Function unknown]	NA|245aa|down_5|AP018920.1_1291116_1291851_+	pfam13462, Thioredoxin_4, Thioredoxin	NA|211aa|down_6|AP018920.1_1291857_1292490_-	COG2364, COG2364, Predicted membrane protein [Function unknown]	NA|482aa|down_7|AP018920.1_1292557_1294003_+	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]	NA|173aa|down_8|AP018920.1_1294007_1294526_-	COG3265, GntK, Gluconate kinase [Carbohydrate transport and metabolism]	NA|306aa|down_9|AP018920.1_1294652_1295570_+	COG2186, FadR, Transcriptional regulators [Transcription]
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	4	1414855-1414914	3	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	CGCCCCGGCCGCCTTCCTGAGCC	23	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA,NA|209aa|down_5|AP018920.1_1419424_1420051_+,NA|81aa|down_6|AP018920.1_1420113_1420356_-,NA|259aa|down_8|AP018920.1_1421217_1421994_-,NA|120aa|down_9|AP018920.1_1422298_1422658_+	NA|262aa|up_9|AP018920.1_1403829_1404615_-	pfam00941, FAD_binding_5, FAD binding domain in molybdopterin dehydrogenase	NA|475aa|up_8|AP018920.1_1404611_1406036_-	TIGR00895, transport_protein, benzoate transport	NA|423aa|up_7|AP018920.1_1406048_1407317_-	PRK08163, PRK08163, 3-hydroxybenzoate 6-monooxygenase	NA|175aa|up_6|AP018920.1_1407457_1407982_-	COG1846, MarR, Transcriptional regulators [Transcription]	NA|198aa|up_5|AP018920.1_1408135_1408729_-	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|322aa|up_4|AP018920.1_1408915_1409881_+	PRK06196, PRK06196, oxidoreductase; Provisional	NA|557aa|up_3|AP018920.1_1409969_1411640_-	cd11332, AmyAc_OligoGlu_TS, Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins	NA|335aa|up_2|AP018920.1_1411730_1412735_+	COG1609, PurR, Transcriptional regulators [Transcription]	NA|376aa|up_1|AP018920.1_1412743_1413871_-	COG2311, COG2311, Predicted membrane protein [Function unknown]	NA|194aa|up_0|AP018920.1_1413948_1414530_+	pfam16859, TetR_C_11, Bacterial transcriptional repressor C-terminal	NA|91aa|down_0|AP018920.1_1414968_1415241_+	pfam07883, Cupin_2, Cupin domain	NA|142aa|down_1|AP018920.1_1415302_1415728_+	pfam03724, META, META domain	NA|259aa|down_2|AP018920.1_1415756_1416533_-	COG0627, COG0627, Predicted esterase [General function prediction only]	NA|352aa|down_3|AP018920.1_1416532_1417588_-	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold	NA|500aa|down_4|AP018920.1_1417819_1419319_+	pfam08386, Abhydrolase_4, TAP-like protein	NA|209aa|down_5|AP018920.1_1419424_1420051_+	NA	NA|81aa|down_6|AP018920.1_1420113_1420356_-	NA	NA|310aa|down_7|AP018920.1_1420402_1421332_-	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold	NA|259aa|down_8|AP018920.1_1421217_1421994_-	NA	NA|120aa|down_9|AP018920.1_1422298_1422658_+	NA
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	5	1485738-1485847	4	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	CCGCTCAGGACGACGCCCGGTCGGT	25	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|217aa|up_8|AP018920.1_1477859_1478510_-,NA|73aa|up_0|AP018920.1_1485072_1485291_-,NA	NA|209aa|up_9|AP018920.1_1477168_1477795_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|217aa|up_8|AP018920.1_1477859_1478510_-	NA	NA|152aa|up_7|AP018920.1_1478549_1479005_-	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|74aa|up_6|AP018920.1_1479260_1479482_+	pfam12277, DUF3618, Protein of unknown function (DUF3618)	NA|399aa|up_5|AP018920.1_1479498_1480695_-	PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional	NA|259aa|up_4|AP018920.1_1480786_1481563_-	PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed	NA|144aa|up_3|AP018920.1_1481559_1481991_-	pfam13581, HATPase_c_2, Histidine kinase-like ATPase domain	NA|140aa|up_2|AP018920.1_1482072_1482492_-	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation	NA|798aa|up_1|AP018920.1_1482563_1484957_+	PRK13558, PRK13558, bacterio-opsin activator; Provisional	NA|73aa|up_0|AP018920.1_1485072_1485291_-	NA	NA|108aa|down_0|AP018920.1_1486003_1486327_-	pfam02467, Whib, Transcription factor WhiB	NA|149aa|down_1|AP018920.1_1486559_1487006_-	TIGR00377, Anti-sigma_F_factor_antagonist, anti-anti-sigma factor	NA|471aa|down_2|AP018920.1_1487226_1488639_-	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated	NA|350aa|down_3|AP018920.1_1488883_1489933_+	COG0031, CysK, Cysteine synthase [Amino acid transport and metabolism]	NA|402aa|down_4|AP018920.1_1489938_1491144_-	COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]	NA|131aa|down_5|AP018920.1_1491175_1491568_-	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation	NA|155aa|down_6|AP018920.1_1491804_1492269_+	cd00586, 4HBT, 4-hydroxybenzoyl-CoA thioesterase (4HBT)	NA|413aa|down_7|AP018920.1_1492309_1493548_-	TIGR03965, glycosyltransferase_Rv0696_family, mycofactocin system glycosyltransferase	NA|431aa|down_8|AP018920.1_1494052_1495345_+	PRK00549, PRK00549, competence damage-inducible protein A; Provisional	NA|200aa|down_9|AP018920.1_1495409_1496009_-	COG0605, SodA, Superoxide dismutase [Inorganic ion transport and metabolism]
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	6	1592490-1592928	1	PILER-CR	no	PrimPol	cas3,csa3,WYL,DinG,PrimPol,DEDDh	Unclear	TGCGTAACTGGCACTGGTGA	20	0	0	NA	NA	NA	6	6	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|233aa|up_1|AP018920.1_1589794_1590493_-,NA|114aa|down_2|AP018920.1_1595875_1596217_-,NA|141aa|down_5|AP018920.1_1598336_1598759_-,NA|92aa|down_7|AP018920.1_1599568_1599844_+	NA|378aa|up_9|AP018920.1_1580733_1581867_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|395aa|up_8|AP018920.1_1582109_1583294_-	PRK07550, PRK07550, aminotransferase	NA|112aa|up_7|AP018920.1_1583800_1584136_-	cd00293, USP_Like, Usp: Universal stress protein family	NA|472aa|up_6|AP018920.1_1584164_1585580_-	cd17359, MFS_XylE_like, D-xylose-proton symporter and similar transporters of the Major Facilitator Superfamily	NA|515aa|up_5|AP018920.1_1586071_1587616_-	PRK14995, PRK14995, SmvA family efflux MFS transporter	NA|196aa|up_4|AP018920.1_1587693_1588281_+	pfam17937, TetR_C_28, Tetracyclin repressor-like, C-terminal domain	NA|172aa|up_3|AP018920.1_1588327_1588843_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|265aa|up_2|AP018920.1_1588877_1589672_-	pfam13359, DDE_Tnp_4, DDE superfamily endonuclease	NA|233aa|up_1|AP018920.1_1589794_1590493_-	NA	NA|359aa|up_0|AP018920.1_1590636_1591713_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|102aa|down_0|AP018920.1_1593596_1593902_+	pfam11706, zf-CGNR, CGNR zinc finger	NA|556aa|down_1|AP018920.1_1594289_1595957_-	COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]	NA|114aa|down_2|AP018920.1_1595875_1596217_-	NA	NA|148aa|down_3|AP018920.1_1596307_1596751_+	pfam03861, ANTAR, ANTAR domain	NA|367aa|down_4|AP018920.1_1596796_1597897_-	cd03506, Delta6-FADS-like, The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria	NA|141aa|down_5|AP018920.1_1598336_1598759_-	NA	NA|191aa|down_6|AP018920.1_1598886_1599459_+	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation	NA|92aa|down_7|AP018920.1_1599568_1599844_+	NA	NA|143aa|down_8|AP018920.1_1600593_1601022_-	pfam18478, PIN_10, PIN like domain	NA|229aa|down_9|AP018920.1_1601026_1601713_-	pfam04255, DUF433, Protein of unknown function (DUF433)
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	8	2614073-2614167	6	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	CGCCCGCCGGGCCCGCCGCGCGG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|196aa|up_5|AP018920.1_2608734_2609322_+,NA|80aa|up_2|AP018920.1_2611622_2611862_+,NA|290aa|up_0|AP018920.1_2612802_2613672_+,NA|160aa|down_0|AP018920.1_2614400_2614880_+,NA|285aa|down_6|AP018920.1_2621671_2622526_-,NA|189aa|down_9|AP018920.1_2624373_2624940_+	NA|386aa|up_9|AP018920.1_2603380_2604538_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|490aa|up_8|AP018920.1_2604668_2606138_+	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|216aa|up_7|AP018920.1_2606170_2606818_+	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|602aa|up_6|AP018920.1_2606825_2608631_-	cd14951, NHL-2_like, NHL repeat domain of NHL repeat-containing protein 2 and similar proteins	NA|196aa|up_5|AP018920.1_2608734_2609322_+	NA	NA|214aa|up_4|AP018920.1_2609330_2609972_-	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|559aa|up_3|AP018920.1_2609968_2611645_-	PRK00179, pgi, glucose-6-phosphate isomerase; Reviewed	NA|80aa|up_2|AP018920.1_2611622_2611862_+	NA	NA|156aa|up_1|AP018920.1_2612188_2612656_+	COG2259, COG2259, Predicted membrane protein [Function unknown]	NA|290aa|up_0|AP018920.1_2612802_2613672_+	NA	NA|160aa|down_0|AP018920.1_2614400_2614880_+	NA	NA|450aa|down_1|AP018920.1_2614905_2616255_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|291aa|down_2|AP018920.1_2616388_2617261_+	COG1409, Icc, Predicted phosphohydrolases [General function prediction only]	NA|348aa|down_3|AP018920.1_2617323_2618367_+	cd01146, FhuD, Fe3+-siderophore binding domain FhuD	NA|553aa|down_4|AP018920.1_2618352_2620011_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|556aa|down_5|AP018920.1_2620007_2621675_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|285aa|down_6|AP018920.1_2621671_2622526_-	NA	NA|443aa|down_7|AP018920.1_2622642_2623971_+	PLN02852, PLN02852, ferredoxin-NADP+ reductase	NA|84aa|down_8|AP018920.1_2624049_2624301_-	PRK01678, rpmE2, type B 50S ribosomal protein L31	NA|189aa|down_9|AP018920.1_2624373_2624940_+	NA
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	10	2913502-2913575	8	CRISPRCasFinder	no	DEDDh	cas3,csa3,WYL,DinG,PrimPol,DEDDh	Unclear	CATCGATGTCAAGATCGTTCTTG	23	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|60aa|up_9|AP018920.1_2905144_2905324_-,NA|147aa|up_8|AP018920.1_2905329_2905770_-,NA|83aa|up_6|AP018920.1_2906327_2906576_-,NA|94aa|up_2|AP018920.1_2910223_2910505_-,NA|99aa|up_0|AP018920.1_2913027_2913324_-,NA|88aa|down_0|AP018920.1_2913732_2913996_+,NA|138aa|down_1|AP018920.1_2913992_2914406_+,NA|175aa|down_2|AP018920.1_2914402_2914927_-,NA|79aa|down_3|AP018920.1_2914930_2915167_-,NA|252aa|down_5|AP018920.1_2915637_2916393_-,NA|79aa|down_6|AP018920.1_2916509_2916746_-,NA|77aa|down_7|AP018920.1_2916738_2916969_-,NA|159aa|down_8|AP018920.1_2916965_2917442_-,NA|59aa|down_9|AP018920.1_2917613_2917790_-	NA|60aa|up_9|AP018920.1_2905144_2905324_-	NA	NA|147aa|up_8|AP018920.1_2905329_2905770_-	NA	NA|184aa|up_7|AP018920.1_2905772_2906324_-	TIGR02215, conserved_hypothetical_protein, phage conserved hypothetical protein, phiE125 gp8 family	NA|83aa|up_6|AP018920.1_2906327_2906576_-	NA	NA|455aa|up_5|AP018920.1_2906690_2908055_-	pfam05065, Phage_capsid, Phage capsid family	NA|287aa|up_4|AP018920.1_2908066_2908927_-	TIGR01543, Putative_prohead_protease, phage prohead protease, HK97 family	NA|424aa|up_3|AP018920.1_2908952_2910224_-	pfam04860, Phage_portal, Phage portal protein	NA|94aa|up_2|AP018920.1_2910223_2910505_-	NA	NA|856aa|up_1|AP018920.1_2910518_2913086_-	pfam03354, Terminase_1, Phage Terminase	NA|99aa|up_0|AP018920.1_2913027_2913324_-	NA	NA|88aa|down_0|AP018920.1_2913732_2913996_+	NA	NA|138aa|down_1|AP018920.1_2913992_2914406_+	NA	NA|175aa|down_2|AP018920.1_2914402_2914927_-	NA	NA|79aa|down_3|AP018920.1_2914930_2915167_-	NA	NA|71aa|down_4|AP018920.1_2915428_2915641_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|252aa|down_5|AP018920.1_2915637_2916393_-	NA	NA|79aa|down_6|AP018920.1_2916509_2916746_-	NA	NA|77aa|down_7|AP018920.1_2916738_2916969_-	NA	NA|159aa|down_8|AP018920.1_2916965_2917442_-	NA	NA|59aa|down_9|AP018920.1_2917613_2917790_-	NA
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	12	3684107-3684266	9	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	TCACCAGTTCCAGTTGCGCATGGC	24	0	0	NA	NA	NA	2	2	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA,NA	NA|241aa|up_9|AP018920.1_3673853_3674576_-	COG0558, PgsA, Phosphatidylglycerophosphate synthase [Lipid metabolism]	NA|186aa|up_8|AP018920.1_3674638_3675196_+	pfam02566, OsmC, OsmC-like protein	NA|304aa|up_7|AP018920.1_3675432_3676344_+	pfam14417, MEDS, MEDS: MEthanogen/methylotroph, DcmR Sensory domain	NA|318aa|up_6|AP018920.1_3676361_3677315_+	pfam13581, HATPase_c_2, Histidine kinase-like ATPase domain	NA|299aa|up_5|AP018920.1_3677596_3678493_+	COG3629, DnrI, DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]	NA|260aa|up_4|AP018920.1_3678508_3679288_-	PRK06688, PRK06688, enoyl-CoA hydratase; Provisional	NA|335aa|up_3|AP018920.1_3679284_3680289_-	TIGR03554, F420_G6P_DH, glucose-6-phosphate dehydrogenase (coenzyme-F420)	NA|681aa|up_2|AP018920.1_3680699_3682742_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|249aa|up_1|AP018920.1_3682738_3683485_+	COG2071, COG2071, Predicted glutamine amidotransferases [General function prediction only]	NA|192aa|up_0|AP018920.1_3683494_3684070_+	pfam12867, DinB_2, DinB superfamily	NA|446aa|down_0|AP018920.1_3684555_3685893_+	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|238aa|down_1|AP018920.1_3685937_3686651_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|794aa|down_2|AP018920.1_3686634_3689016_-	COG3973, COG3973, Superfamily I DNA and RNA helicases [General function prediction only]	NA|435aa|down_3|AP018920.1_3689240_3690545_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|341aa|down_4|AP018920.1_3690519_3691542_-	cd01146, FhuD, Fe3+-siderophore binding domain FhuD	NA|795aa|down_5|AP018920.1_3691668_3694053_-	COG1554, ATH1, Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]	NA|244aa|down_6|AP018920.1_3694049_3694781_-	TIGR02009, Hypothetical_protein_Rv3400/MT3508/Mb3433	NA|572aa|down_7|AP018920.1_3694853_3696569_-	PRK09632, PRK09632, ATP-dependent DNA ligase; Reviewed	NA|860aa|down_8|AP018920.1_3696690_3699270_+	pfam12029, DUF3516, Domain of unknown function (DUF3516)	NA|717aa|down_9|AP018920.1_3699361_3701512_+	PRK10060, PRK10060, cyclic di-GMP phosphodiesterase
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	13	3830593-3830681	10	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	GTGCCGGGATCAGGCCGGGCCGGG	24	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA,NA|132aa|down_3|AP018920.1_3833852_3834248_+	NA|280aa|up_9|AP018920.1_3818877_3819717_-	pfam00941, FAD_binding_5, FAD binding domain in molybdopterin dehydrogenase	NA|354aa|up_8|AP018920.1_3820162_3821224_+	TIGR03181, PDH_E1_alph_x, pyruvate dehydrogenase E1 component, alpha subunit	NA|324aa|up_7|AP018920.1_3821291_3822263_+	COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]	NA|509aa|up_6|AP018920.1_3822259_3823786_+	PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed	NA|357aa|up_5|AP018920.1_3823825_3824896_+	COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]	NA|765aa|up_4|AP018920.1_3824953_3827248_-	cd02769, MopB_DMSOR-BSOR-TMAOR, The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR),  trimethylamine N-oxide reductase (TMAOR) and other related proteins	NA|175aa|up_3|AP018920.1_3827310_3827835_+	pfam04978, DUF664, Protein of unknown function (DUF664)	NA|308aa|up_2|AP018920.1_3827921_3828845_+	cd08420, PBP2_CysL_like, C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold	NA|430aa|up_1|AP018920.1_3828785_3830075_-	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters	NA|147aa|up_0|AP018920.1_3830071_3830512_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|160aa|down_0|AP018920.1_3831283_3831763_+	cd01285, nucleoside_deaminase, Nucleoside deaminases include adenosine, guanine and cytosine deaminases	NA|144aa|down_1|AP018920.1_3832010_3832442_+	COG4270, COG4270, Predicted membrane protein [Function unknown]	NA|368aa|down_2|AP018920.1_3832601_3833705_-	pfam18844, baeRF_family2, Bacterial archaeo-eukaryotic release factor family 2	NA|132aa|down_3|AP018920.1_3833852_3834248_+	NA	NA|404aa|down_4|AP018920.1_3834580_3835792_+	cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail	NA|256aa|down_5|AP018920.1_3835878_3836646_+	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|532aa|down_6|AP018920.1_3836642_3838238_+	COG3349, COG3349, Uncharacterized conserved protein [Function unknown]	NA|338aa|down_7|AP018920.1_3838260_3839274_+	pfam00355, Rieske, Rieske [2Fe-2S] domain	NA|337aa|down_8|AP018920.1_3839281_3840292_-	pfam12625, Arabinose_bd, Arabinose-binding domain of AraC transcription regulator, N-term	NA|521aa|down_9|AP018920.1_3840430_3841993_+	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	14	3862861-3862951	11	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	GCGGTGGGGCTCCGAGCCGGGTGATCA	27	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|68aa|up_9|AP018920.1_3854918_3855122_-,NA|97aa|up_5|AP018920.1_3857862_3858153_-,NA	NA|68aa|up_9|AP018920.1_3854918_3855122_-	NA	NA|195aa|up_8|AP018920.1_3855242_3855827_+	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|292aa|up_7|AP018920.1_3855914_3856790_+	PRK04155, PRK04155, protein deglycase HchA	NA|313aa|up_6|AP018920.1_3856851_3857790_-	PRK03449, PRK03449, putative inner membrane protein translocase component YidC; Provisional	NA|97aa|up_5|AP018920.1_3857862_3858153_-	NA	NA|101aa|up_4|AP018920.1_3858314_3858617_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|115aa|up_3|AP018920.1_3858613_3858958_+	pfam00699, Urease_beta, Urease beta subunit	NA|573aa|up_2|AP018920.1_3858954_3860673_+	PRK13207, ureC, urease subunit alpha; Reviewed	NA|237aa|up_1|AP018920.1_3860672_3861383_+	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]	NA|241aa|up_0|AP018920.1_3861372_3862095_+	cd05540, UreG, urease accessory protein UreG	NA|295aa|down_0|AP018920.1_3863042_3863927_-	cd01038, Endonuclease_DUF559, Domain of unknown function, appears to be related to a diverse group of endonucleases	NA|262aa|down_1|AP018920.1_3864051_3864837_-	COG1414, IclR, Transcriptional regulator [Transcription]	NA|277aa|down_2|AP018920.1_3864985_3865816_+	TIGR03234, OH-pyruv-isom, hydroxypyruvate isomerase	NA|145aa|down_3|AP018920.1_3865964_3866399_-	pfam01740, STAS, STAS domain	NA|301aa|down_4|AP018920.1_3866906_3867809_-	COG2513, PrpB, PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]	NA|235aa|down_5|AP018920.1_3867934_3868639_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|316aa|down_6|AP018920.1_3868635_3869583_+	COG1398, OLE1, Fatty-acid desaturase [Lipid metabolism]	NA|354aa|down_7|AP018920.1_3869658_3870720_-	COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]	NA|564aa|down_8|AP018920.1_3870716_3872408_-	COG1178, ThiP, ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]	NA|336aa|down_9|AP018920.1_3872410_3873418_-	cd13543, PBP2_Fbp, Substrate binding domain of ferric iron transporter, a member of the type 2 periplasmic binding fold superfamily
GCA_003945385.1_ASM394538v1	AP018920	Pseudonocardia autotrophica NBRC 12743 DNA, complete genome	15	5163823-5163923	12	CRISPRCasFinder	no		cas3,csa3,WYL,DinG,PrimPol,DEDDh	Orphan	GCCAACCGGCGAGACCGACCGGC	23	1	2	5163885-5163900|5163885-5163900	AP018921.1_84266-84281|AP018921.1_213082-213067	NA	2	2	Orphan	cas3,csa3,WYL,DinG,PrimPol,DEDDh	NA|215aa|up_5|AP018920.1_5160496_5161141_+,NA|73aa|down_9|AP018920.1_5172580_5172799_+	NA|339aa|up_9|AP018920.1_5155144_5156161_+	pfam02322, Cyt_bd_oxida_II, Cytochrome bd terminal oxidase subunit II	NA|266aa|up_8|AP018920.1_5156198_5156996_-	cd13538, PBP2_ModA_like_1, Substrate binding domain of putative molybdate-binding protein;the type 2 periplasmic binding protein fold	NA|453aa|up_7|AP018920.1_5157836_5159195_+	PRK07846, PRK07846, mycothione reductase; Reviewed	NA|381aa|up_6|AP018920.1_5159188_5160331_-	pfam06772, LtrA, Bacterial low temperature requirement A protein (LtrA)	NA|215aa|up_5|AP018920.1_5160496_5161141_+	NA	NA|112aa|up_4|AP018920.1_5161185_5161521_+	pfam14542, Acetyltransf_CG, GCN5-related N-acetyl-transferase	NA|164aa|up_3|AP018920.1_5161517_5162009_+	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|324aa|up_2|AP018920.1_5162005_5162977_+	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|158aa|up_1|AP018920.1_5162960_5163434_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|78aa|up_0|AP018920.1_5163584_5163818_+	pfam11387, DUF2795, Protein of unknown function (DUF2795)	NA|106aa|down_0|AP018920.1_5163937_5164255_-	pfam13710, ACT_5, ACT domain	NA|232aa|down_1|AP018920.1_5164393_5165089_-	cd03024, DsbA_FrnE, DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif	NA|442aa|down_2|AP018920.1_5165140_5166466_-	TIGR02155, Phenylacetate-coenzyme_A_ligase, phenylacetate-CoA ligase	NA|677aa|down_3|AP018920.1_5166462_5168493_-	PRK11563, PRK11563, bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional	NA|270aa|down_4|AP018920.1_5168644_5169454_+	PRK08140, PRK08140, enoyl-CoA hydratase; Provisional	NA|203aa|down_5|AP018920.1_5169450_5170059_+	pfam17932, TetR_C_24, Tetracyclin repressor-like, C-terminal domain	NA|106aa|down_6|AP018920.1_5170304_5170622_+	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit	NA|262aa|down_7|AP018920.1_5170618_5171404_+	COG1414, IclR, Transcriptional regulator [Transcription]	NA|352aa|down_8|AP018920.1_5171528_5172584_+	cd03532, Rieske_RO_Alpha_VanA_DdmC, Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth	NA|73aa|down_9|AP018920.1_5172580_5172799_+	NA
