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_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	1	391671-391775	1	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	TTGCCATAGCATAAGACGAATTTTT	25	1	2	391696-391750|391696-391750	NC_009633.1_1787721-1787775|NC_009633.1_1787805-1787859	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA	NA|149aa|up_9|NC_009633.1_384143_384590_+	pfam03899, ATP-synt_I, ATP synthase I chain	NA|233aa|up_8|NC_009633.1_384555_385254_+	PRK05815, PRK05815, F0F1 ATP synthase subunit A; Validated	NA|185aa|up_7|NC_009633.1_385337_385892_+	PRK13469, PRK13469, F0F1 ATP synthase subunit C; Provisional	NA|89aa|up_6|NC_009633.1_385989_386256_+	PRK13469, PRK13469, F0F1 ATP synthase subunit C; Provisional	NA|169aa|up_5|NC_009633.1_386323_386830_+	cd06503, ATP-synt_Fo_b, F-type ATP synthase, membrane subunit b	NA|181aa|up_4|NC_009633.1_386817_387360_+	pfam00213, OSCP, ATP synthase delta (OSCP) subunit	NA|506aa|up_3|NC_009633.1_387377_388895_+	PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated	NA|290aa|up_2|NC_009633.1_388932_389802_+	pfam00231, ATP-synt, ATP synthase	NA|465aa|up_1|NC_009633.1_389820_391215_+	PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated	NA|135aa|up_0|NC_009633.1_391224_391629_+	cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit	NA|140aa|down_0|NC_009633.1_391785_392205_-	cd09846, DUF1312, N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312	NA|184aa|down_1|NC_009633.1_392530_393082_+	pfam07997, DUF1694, Protein of unknown function (DUF1694)	NA|280aa|down_2|NC_009633.1_393303_394143_+	pfam08680, DUF1779, TATA-box binding	NA|418aa|down_3|NC_009633.1_394174_395428_+	PRK09369, PRK09369, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated	NA|335aa|down_4|NC_009633.1_395534_396539_+	TIGR02870, Stage_II_sporulation_protein_D, stage II sporulation protein D	NA|300aa|down_5|NC_009633.1_396645_397545_+	pfam01551, Peptidase_M23, Peptidase family M23	NA|195aa|down_6|NC_009633.1_397787_398372_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|387aa|down_7|NC_009633.1_398444_399605_+	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit	NA|1024aa|down_8|NC_009633.1_399601_402673_+	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|88aa|down_9|NC_009633.1_402813_403077_+	pfam12116, SpoIIID, Stage III sporulation protein D
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	2	487670-487805	2	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	GGATTATTTCGGATGAAAGGAATCATGAAATTTCTAACTAAGTGACT	47	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA|70aa|up_4|NC_009633.1_481906_482116_+,NA|179aa|up_0|NC_009633.1_487054_487591_-,NA	NA|298aa|up_9|NC_009633.1_474939_475833_+	pfam03690, UPF0160, Uncharacterized protein family (UPF0160)	NA|350aa|up_8|NC_009633.1_475913_476963_-	pfam02277, DBI_PRT, Phosphoribosyltransferase	NA|438aa|up_7|NC_009633.1_477800_479114_+	TIGR03173, pbuX, xanthine permease	NA|139aa|up_6|NC_009633.1_479339_479756_+	pfam05598, DUF772, Transposase domain (DUF772)	NA|436aa|up_5|NC_009633.1_480587_481895_+	COG0840, Tar, Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]	NA|70aa|up_4|NC_009633.1_481906_482116_+	NA	NA|264aa|up_3|NC_009633.1_483408_484200_+	COG1319, CoxM, Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]	NA|150aa|up_2|NC_009633.1_484199_484649_+	COG2080, CoxS, Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]	NA|770aa|up_1|NC_009633.1_484651_486961_+	PRK09970, PRK09970, xanthine dehydrogenase subunit XdhA; Provisional	NA|179aa|up_0|NC_009633.1_487054_487591_-	NA	NA|111aa|down_0|NC_009633.1_488030_488363_+	pfam12986, DUF3870, Domain of unknown function (DUF3870)	NA|364aa|down_1|NC_009633.1_488685_489777_+	cd03319, L-Ala-DL-Glu_epimerase, L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides	NA|310aa|down_2|NC_009633.1_489808_490738_+	cd07025, Peptidase_S66, LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein	NA|329aa|down_3|NC_009633.1_490844_491831_-	pfam01244, Peptidase_M19, Membrane dipeptidase (Peptidase family M19)	NA|47aa|down_4|NC_009633.1_491986_492127_+	COG2204, AtoC, Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]	NA|273aa|down_5|NC_009633.1_492142_492961_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|643aa|down_6|NC_009633.1_493221_495150_+	TIGR01813, Fumarate_reductase_flavoprotein_subunit, flavocytochrome c	NA|251aa|down_7|NC_009633.1_495475_496228_+	COG1691, COG1691, NCAIR mutase (PurE)-related proteins [General function prediction only]	NA|422aa|down_8|NC_009633.1_496220_497486_+	pfam01969, DUF111, Protein of unknown function DUF111	NA|271aa|down_9|NC_009633.1_497535_498348_+	cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	3	556712-556840	3	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	ATTTAAGTGCGCCATGAGTCGATGCAGTAGCATCAGACGAATTTTA	46	1	2	556758-556794|556758-556794	NC_009633.1_1139627-1139591|NC_009633.1_165572-165608	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA|75aa|up_3|NC_009633.1_554864_555089_-,NA|71aa|up_0|NC_009633.1_556424_556637_+,NA	NA|347aa|up_9|NC_009633.1_550243_551284_-	COG2206, COG2206, c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]	NA|276aa|up_8|NC_009633.1_551513_552341_+	COG0327, COG0327, Uncharacterized conserved protein [Function unknown]	NA|243aa|up_7|NC_009633.1_552515_553244_+	pfam09922, DUF2154, Cell wall-active antibiotics response 4TMS YvqF	NA|119aa|up_6|NC_009633.1_553417_553774_+	pfam08291, Peptidase_M15_3, Peptidase M15	NA|209aa|up_5|NC_009633.1_553837_554464_+	pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch 1)	NA|104aa|up_4|NC_009633.1_554572_554884_-	pfam01906, YbjQ_1, Putative heavy-metal-binding	NA|75aa|up_3|NC_009633.1_554864_555089_-	NA	NA|89aa|up_2|NC_009633.1_555107_555374_-	COG2350, COG2350, Uncharacterized protein conserved in bacteria [Function unknown]	NA|279aa|up_1|NC_009633.1_555524_556361_+	pfam10648, Gmad2, Immunoglobulin-like domain of bacterial spore germination	NA|71aa|up_0|NC_009633.1_556424_556637_+	NA	NA|208aa|down_0|NC_009633.1_556953_557577_+	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|429aa|down_1|NC_009633.1_557741_559028_-	pfam09861, DUF2088, Domain of unknown function (DUF2088)	NA|318aa|down_2|NC_009633.1_560689_561643_-	cd01562, Thr-dehyd, Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen	NA|321aa|down_3|NC_009633.1_561784_562747_-	pfam01471, PG_binding_1, Putative peptidoglycan binding domain	NA|723aa|down_4|NC_009633.1_563102_565271_+	PRK09420, cpdB, bifunctional 2',3'-cyclic-nucleotide 2'-phosphodiesterase/3'-nucleotidase	NA|386aa|down_5|NC_009633.1_565340_566498_-	pfam07907, YibE_F, YibE/F-like protein	NA|285aa|down_6|NC_009633.1_566551_567406_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|466aa|down_7|NC_009633.1_567628_569026_+	cd13138, MATE_yoeA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA	NA|237aa|down_8|NC_009633.1_569180_569891_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|464aa|down_9|NC_009633.1_569883_571275_+	TIGR02966, Phosphate_regulon_sensor_protein_PhoR, phosphate regulon sensor kinase PhoR
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	4	782114-782217	4	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	TGAAAACTGTTTAGAATAAATAATGGAAATAA	32	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA|188aa|up_6|NC_009633.1_776186_776750_+,NA|124aa|up_1|NC_009633.1_781055_781427_+,NA|78aa|up_0|NC_009633.1_781694_781928_+,NA|78aa|down_4|NC_009633.1_784207_784441_+,NA|65aa|down_7|NC_009633.1_785873_786068_+	NA|165aa|up_9|NC_009633.1_773151_773646_+	pfam05130, FlgN, FlgN protein	NA|494aa|up_8|NC_009633.1_773662_775144_+	PRK07739, flgK, flagellar hook-associated protein FlgK; Validated	NA|319aa|up_7|NC_009633.1_775189_776146_+	PRK07701, flgL, flagellar hook-associated protein FlgL; Validated	NA|188aa|up_6|NC_009633.1_776186_776750_+	NA	NA|163aa|up_5|NC_009633.1_776958_777447_+	PRK13285, PRK13285, flagellar assembly protein FliW; Provisional	NA|76aa|up_4|NC_009633.1_777446_777674_+	PRK01712, PRK01712, carbon storage regulator CsrA	NA|400aa|up_3|NC_009633.1_777855_779055_+	PRK08869, PRK08869, polar flagellin E	NA|590aa|up_2|NC_009633.1_779135_780905_+	sd00006, TPR, Tetratricopeptide repeat	NA|124aa|up_1|NC_009633.1_781055_781427_+	NA	NA|78aa|up_0|NC_009633.1_781694_781928_+	NA	NA|52aa|down_0|NC_009633.1_782649_782805_+	pfam14070, YjfB_motility, Putative motility protein	NA|131aa|down_1|NC_009633.1_782990_783383_+	pfam08780, NTase_sub_bind, Nucleotidyltransferase substrate binding protein like	NA|104aa|down_2|NC_009633.1_783382_783694_+	pfam18765, Polbeta, Polymerase beta, Nucleotidyltransferase	NA|59aa|down_3|NC_009633.1_784007_784184_+	pfam14070, YjfB_motility, Putative motility protein	NA|78aa|down_4|NC_009633.1_784207_784441_+	NA	NA|290aa|down_5|NC_009633.1_784593_785463_+	pfam12784, PDDEXK_2, PD-(D/E)XK nuclease family transposase	NA|66aa|down_6|NC_009633.1_785652_785850_+	pfam14070, YjfB_motility, Putative motility protein	NA|65aa|down_7|NC_009633.1_785873_786068_+	NA	NA|95aa|down_8|NC_009633.1_786166_786451_+	pfam02604, PhdYeFM_antitox, Antitoxin Phd_YefM, type II toxin-antitoxin system	NA|105aa|down_9|NC_009633.1_786437_786752_+	COG3668, ParE, Plasmid stabilization system protein [General function prediction only]
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	5	1269827-1269934	5	CRISPRCasFinder	no	csa3	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Type I-A	AGGCATGTGTCCCATCATAGGTGG	24	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA	NA|286aa|up_9|NC_009633.1_1261245_1262103_-	PRK11867, PRK11867, 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed	NA|561aa|up_8|NC_009633.1_1262103_1263786_-	TIGR03710, OAFO_sf, 2-oxoacid:acceptor oxidoreductase, alpha subunit	NA|251aa|up_7|NC_009633.1_1264082_1264835_+	pfam04307, YdjM, LexA-binding, inner membrane-associated putative hydrolase	NA|103aa|up_6|NC_009633.1_1264839_1265148_-	pfam05437, AzlD, Branched-chain amino acid transport protein (AzlD)	NA|248aa|up_5|NC_009633.1_1265152_1265896_-	COG1296, AzlC, Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]	NA|240aa|up_4|NC_009633.1_1266155_1266875_+	COG1011, COG1011, Predicted hydrolase (HAD superfamily) [General function prediction only]	NA|143aa|up_3|NC_009633.1_1267023_1267452_+	pfam08973, TM1506, Domain of unknown function (DUF1893)	NA|107aa|up_2|NC_009633.1_1267605_1267926_+	pfam18423, zf_CopZ, Zinc binding domain	NA|279aa|up_1|NC_009633.1_1267935_1268772_+	COG2996, COG2996, Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]	NA|115aa|up_0|NC_009633.1_1268827_1269172_+	pfam03780, Asp23, Asp23 family, cell envelope-related function	NA|77aa|down_0|NC_009633.1_1270184_1270415_-	PRK00982, acpP, acyl carrier protein; Provisional	NA|113aa|down_1|NC_009633.1_1270671_1271010_+	cd00350, rubredoxin_like, Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center	NA|542aa|down_2|NC_009633.1_1271256_1272882_+	COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and metabolism]	NA|273aa|down_3|NC_009633.1_1273221_1274040_+	TIGR02069, cyanophycinase, cyanophycinase	NA|888aa|down_4|NC_009633.1_1274084_1276748_+	PRK14016, PRK14016, cyanophycin synthetase; Provisional	NA|242aa|down_5|NC_009633.1_1276957_1277683_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	csa3|106aa|down_6|NC_009633.1_1277940_1278258_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|328aa|down_7|NC_009633.1_1278278_1279262_+	COG0701, COG0701, Predicted permeases [General function prediction only]	NA|78aa|down_8|NC_009633.1_1279343_1279577_+	pfam13192, Thioredoxin_3, Thioredoxin domain	NA|625aa|down_9|NC_009633.1_1279778_1281653_-	COG5421, COG5421, Transposase [DNA replication, recombination, and repair]
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	6	1327026-1327135	6	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	TTTAAGCACTTGAGATTTAAAACAACGC	28	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA|157aa|down_3|NC_009633.1_1331112_1331583_+,NA|64aa|down_8|NC_009633.1_1334460_1334652_-	NA|336aa|up_9|NC_009633.1_1313391_1314399_+	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold	NA|495aa|up_8|NC_009633.1_1314577_1316062_+	pfam01970, TctA, Tripartite tricarboxylate transporter TctA family	NA|573aa|up_7|NC_009633.1_1316191_1317910_+	pfam00920, ILVD_EDD, Dehydratase family	NA|650aa|up_6|NC_009633.1_1318292_1320242_+	COG0174, GlnA, Glutamine synthetase [Amino acid transport and metabolism]	NA|153aa|up_5|NC_009633.1_1320394_1320853_+	pfam12732, YtxH, YtxH-like protein	NA|133aa|up_4|NC_009633.1_1320885_1321284_+	pfam06103, DUF948, Bacterial protein of unknown function (DUF948)	NA|248aa|up_3|NC_009633.1_1321396_1322140_-	COG2220, COG2220, Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]	NA|237aa|up_2|NC_009633.1_1322255_1322966_+	pfam09335, VTT, VMP1, TMEM41, and TVP38 (VTT) domain	NA|657aa|up_1|NC_009633.1_1323120_1325091_+	COG3437, COG3437, Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]	NA|526aa|up_0|NC_009633.1_1325364_1326942_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|276aa|down_0|NC_009633.1_1327187_1328015_-	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|472aa|down_1|NC_009633.1_1328597_1330013_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|170aa|down_2|NC_009633.1_1330230_1330740_-	COG1853, COG1853, Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]	NA|157aa|down_3|NC_009633.1_1331112_1331583_+	NA	NA|231aa|down_4|NC_009633.1_1331557_1332250_+	pfam04647, AgrB, Accessory gene regulator B	NA|45aa|down_5|NC_009633.1_1332249_1332384_+	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|233aa|down_6|NC_009633.1_1332534_1333233_-	COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]	NA|366aa|down_7|NC_009633.1_1333356_1334454_-	pfam03845, Spore_permease, Spore germination protein	NA|64aa|down_8|NC_009633.1_1334460_1334652_-	NA	NA|386aa|down_9|NC_009633.1_1334688_1335846_-	TIGR02887, Spore_germination_protein_B3, germination protein, Ger(x)C family
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	7	1716733-1716841	7	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	CGACTCATGGCGCACTTAAATTTAAAACG	29	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA	NA|156aa|up_9|NC_009633.1_1707248_1707716_-	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|180aa|up_8|NC_009633.1_1707894_1708434_+	COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]	NA|388aa|up_7|NC_009633.1_1708593_1709757_+	cd03886, M20_Acy1, M20 Peptidase Aminoacylase 1 family	NA|335aa|up_6|NC_009633.1_1709777_1710782_+	pfam02517, Abi, CAAX protease self-immunity	NA|472aa|up_5|NC_009633.1_1710910_1712326_+	cd09129, PLDc_unchar2_1, Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins	NA|67aa|up_4|NC_009633.1_1712593_1712794_+	pfam00269, SASP, Small, acid-soluble spore proteins, alpha/beta type	NA|251aa|up_3|NC_009633.1_1712871_1713624_+	pfam13649, Methyltransf_25, Methyltransferase domain	NA|67aa|up_2|NC_009633.1_1713833_1714034_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|293aa|up_1|NC_009633.1_1714327_1715206_+	PRK00114, hslO, Hsp33 family molecular chaperone HslO	NA|322aa|up_0|NC_009633.1_1715743_1716709_+	pfam08812, YtxC, YtxC-like family	NA|201aa|down_0|NC_009633.1_1717035_1717638_+	COG4399, COG4399, Uncharacterized protein conserved in bacteria [Function unknown]	NA|635aa|down_1|NC_009633.1_1718084_1719989_+	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed	NA|474aa|down_2|NC_009633.1_1720046_1721468_-	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH	NA|173aa|down_3|NC_009633.1_1721972_1722491_+	PRK00028, infC, translation initiation factor IF-3; Reviewed	NA|64aa|down_4|NC_009633.1_1722511_1722703_+	PRK00172, rpmI, 50S ribosomal protein L35; Reviewed	NA|120aa|down_5|NC_009633.1_1722735_1723095_+	PRK05185, rplT, 50S ribosomal protein L20; Provisional	NA|450aa|down_6|NC_009633.1_1723362_1724712_+	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|215aa|down_7|NC_009633.1_1724725_1725370_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]	NA|272aa|down_8|NC_009633.1_1725387_1726203_+	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|30aa|down_9|NC_009633.1_1726306_1726396_+	pfam14006, YqzL, YqzL-like protein
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	8	1762705-1763869	1,8,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas5,cas8c,cas7,cas4,cas1,cas2	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Type I-C,Type I-U, Type I-U?	GTCGCTCCCTATATGGGGGCGTGGATTGAAAT,GTCGCTCCCTATATGGGGGCGTGGATTGAAAT,GTCGCTCCCTATATGGGGGCGNTGGATTGAAAT	32,32,33	0	0	NA	NA	I-C:I-C:NA	17,17,17	17	TypeI-C,TypeI-U,TypeI-U?	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA	NA|246aa|up_9|NC_009633.1_1750763_1751501_+	cd02142, McbC_SagB-like_oxidoreductase, oxidase similar to the microcin B17 processing protein McbC	NA|191aa|up_8|NC_009633.1_1751573_1752146_-	PRK06853, PRK06853, indolepyruvate oxidoreductase subunit beta; Reviewed	NA|596aa|up_7|NC_009633.1_1752159_1753947_-	TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase, alpha subunit	cas3|799aa|up_6|NC_009633.1_1754575_1756972_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|251aa|up_5|NC_009633.1_1756986_1757739_+	cd09752, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas8c|652aa|up_4|NC_009633.1_1757722_1759678_+	cd09757, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c	cas7|287aa|up_3|NC_009633.1_1759693_1760554_+	cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas4|222aa|up_2|NC_009633.1_1760543_1761209_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|344aa|up_1|NC_009633.1_1761205_1762237_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|97aa|up_0|NC_009633.1_1762245_1762536_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|348aa|down_0|NC_009633.1_1763999_1765043_-	pfam03358, FMN_red, NADPH-dependent FMN reductase	NA|415aa|down_1|NC_009633.1_1765039_1766284_-	COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and conversion]	NA|1632aa|down_2|NC_009633.1_1766302_1771198_-	cd02165, NMNAT, Nicotinamide/nicotinate mononucleotide adenylyltransferase	NA|128aa|down_3|NC_009633.1_1771687_1772071_+	pfam06271, RDD, RDD family	NA|276aa|down_4|NC_009633.1_1772262_1773090_+	cd13620, PBP2_GltS, Substrate binding domain of glutamate or arginine ABC transporter, a member of the type 2 periplasmic binding fold protein superfamily	NA|218aa|down_5|NC_009633.1_1773186_1773840_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|244aa|down_6|NC_009633.1_1773832_1774564_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|1177aa|down_7|NC_009633.1_1774789_1778320_+	TIGR02176, pyruvate_flavodoxin/ferrodoxin_oxidoreductase, pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric	NA|492aa|down_8|NC_009633.1_1778720_1780196_+	PRK14508, PRK14508, 4-alpha-glucanotransferase; Provisional	NA|787aa|down_9|NC_009633.1_1780204_1782565_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	9	2274931-2278995	2,9,2	PILER-CR,CRISPRCasFinder,CRT	no	WYL,cas6,cas8b2,cas7,cas5,cas3,cas4,cas1,cas2	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Unclear	CCTTTAATTGAACTAGAGTAGAATGTAAAT,CCTTTAATTGAACTAGAGTAGAATGTAAAT,CCTTTAATTGAACTAGAGTAGAATGTAAAT	30,30,30	0	0	NA	NA	NA:NA:NA	61,61,61	61	Unclear	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA,NA|129aa|down_0|NC_009633.1_2279940_2280327_+	WYL|316aa|up_9|NC_009633.1_2263886_2264834_+	pfam13280, WYL, WYL domain	NA|485aa|up_8|NC_009633.1_2265009_2266464_-	pfam05598, DUF772, Transposase domain (DUF772)	cas6|243aa|up_7|NC_009633.1_2266635_2267364_+	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	cas8b2|555aa|up_6|NC_009633.1_2267377_2269042_+	cd09754, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas7|295aa|up_5|NC_009633.1_2269041_2269926_+	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	cas5|260aa|up_4|NC_009633.1_2269912_2270692_+	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas3|744aa|up_3|NC_009633.1_2270713_2272945_+	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas4|164aa|up_2|NC_009633.1_2272968_2273460_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|331aa|up_1|NC_009633.1_2273470_2274463_+	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas2|93aa|up_0|NC_009633.1_2274467_2274746_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|129aa|down_0|NC_009633.1_2279940_2280327_+	NA	NA|164aa|down_1|NC_009633.1_2280370_2280862_+	pfam01863, DUF45, Protein of unknown function DUF45	NA|343aa|down_2|NC_009633.1_2280992_2282021_-	pfam13482, RNase_H_2, RNase_H superfamily	NA|509aa|down_3|NC_009633.1_2282192_2283719_+	pfam00395, SLH, S-layer homology domain	NA|679aa|down_4|NC_009633.1_2283914_2285951_+	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]	NA|331aa|down_5|NC_009633.1_2285967_2286960_-	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|204aa|down_6|NC_009633.1_2287324_2287936_+	pfam02589, LUD_dom, LUD domain	NA|386aa|down_7|NC_009633.1_2288155_2289313_+	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]	NA|393aa|down_8|NC_009633.1_2289320_2290499_+	PRK01565, PRK01565, thiamine biosynthesis protein ThiI; Provisional	NA|160aa|down_9|NC_009633.1_2290519_2290999_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	10	4090088-4090179	10	CRISPRCasFinder	no	csa3	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Type I-A	AGAAGTATGATTTTTAGACTCCT	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA|80aa|up_9|NC_009633.1_4077228_4077468_-,NA|177aa|up_7|NC_009633.1_4078892_4079423_-,NA|290aa|up_5|NC_009633.1_4082268_4083138_-,NA|259aa|up_4|NC_009633.1_4083529_4084306_-,NA|279aa|up_3|NC_009633.1_4084308_4085145_-,NA|85aa|up_1|NC_009633.1_4086485_4086740_-,NA|53aa|down_4|NC_009633.1_4096054_4096213_-,NA|226aa|down_8|NC_009633.1_4099150_4099828_-	NA|80aa|up_9|NC_009633.1_4077228_4077468_-	NA	NA|438aa|up_8|NC_009633.1_4077497_4078811_-	COG0739, NlpD, Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]	NA|177aa|up_7|NC_009633.1_4078892_4079423_-	NA	NA|138aa|up_6|NC_009633.1_4081842_4082256_-	pfam12666, PrgI, PrgI family protein	NA|290aa|up_5|NC_009633.1_4082268_4083138_-	NA	NA|259aa|up_4|NC_009633.1_4083529_4084306_-	NA	NA|279aa|up_3|NC_009633.1_4084308_4085145_-	NA	NA|297aa|up_2|NC_009633.1_4085343_4086234_-	pfam11185, DUF2971, Protein of unknown function (DUF2971)	NA|85aa|up_1|NC_009633.1_4086485_4086740_-	NA	NA|166aa|up_0|NC_009633.1_4089065_4089563_-	pfam12687, DUF3801, Protein of unknown function (DUF3801)	NA|320aa|down_0|NC_009633.1_4090585_4091545_-	cd16408, ParB_N_like, ParB N-terminal, parA -binding, -like domain of bacterial and plasmid parABS partitioning systems	NA|263aa|down_1|NC_009633.1_4091531_4092320_-	pfam13614, AAA_31, AAA domain	NA|355aa|down_2|NC_009633.1_4092842_4093907_-	TIGR00832, Uncharacterized_transporter_slr0944, arsenical-resistance protein	NA|637aa|down_3|NC_009633.1_4094015_4095926_-	COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and metabolism]	NA|53aa|down_4|NC_009633.1_4096054_4096213_-	NA	csa3|113aa|down_5|NC_009633.1_4096289_4096628_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|160aa|down_6|NC_009633.1_4096842_4097322_-	pfam18423, zf_CopZ, Zinc binding domain	NA|534aa|down_7|NC_009633.1_4097535_4099137_-	pfam14281, PDDEXK_4, PD-(D/E)XK nuclease superfamily	NA|226aa|down_8|NC_009633.1_4099150_4099828_-	NA	NA|75aa|down_9|NC_009633.1_4099843_4100068_-	pfam13443, HTH_26, Cro/C1-type HTH DNA-binding domain
GCF_000016985.1_ASM1698v1	NC_009633	Alkaliphilus metalliredigens QYMF, complete genome	11	4772511-4772627	11	CRISPRCasFinder	no		csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	Orphan	AAAATTTCAAGTGCTTAAACAGAATTCGTCTTAT	34	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,RT,cas14j,cas5,cas8c,cas7,cas4,cas1,cas2,PrimPol,WYL,cas6,cas8b2,DEDDh,DinG	NA|335aa|up_9|NC_009633.1_4759247_4760252_-,NA|77aa|up_2|NC_009633.1_4769332_4769563_-,NA|77aa|down_4|NC_009633.1_4776326_4776557_-	NA|335aa|up_9|NC_009633.1_4759247_4760252_-	NA	NA|206aa|up_8|NC_009633.1_4760263_4760881_-	cd00838, MPP_superfamily, metallophosphatase superfamily, metallophosphatase domain	NA|75aa|up_7|NC_009633.1_4760987_4761212_-	cd17505, Ubl_SAMP1_like, ubiquitin-like (Ubl) domain found in small archaeal modifier protein 1 (SAMP1)	NA|604aa|up_6|NC_009633.1_4761293_4763105_-	COG2414, COG2414, Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]	NA|646aa|up_5|NC_009633.1_4763283_4765221_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|482aa|up_4|NC_009633.1_4765352_4766798_-	cd03877, M28_like, M28 Zn-peptidase, many containing a protease-associated (PA) domain insert	NA|655aa|up_3|NC_009633.1_4767039_4769004_+	cd02766, MopB_3, The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site	NA|77aa|up_2|NC_009633.1_4769332_4769563_-	NA	NA|661aa|up_1|NC_009633.1_4769709_4771692_-	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|163aa|up_0|NC_009633.1_4771919_4772408_-	pfam08761, dUTPase_2, dUTPase	NA|167aa|down_0|NC_009633.1_4772748_4773249_-	PRK05590, PRK05590, hypothetical protein; Provisional	NA|464aa|down_1|NC_009633.1_4773370_4774762_-	cd13137, MATE_NorM_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM	NA|212aa|down_2|NC_009633.1_4775121_4775757_+	pfam09515, Thia_YuaJ, Thiamine transporter protein (Thia_YuaJ)	NA|125aa|down_3|NC_009633.1_4775906_4776281_+	pfam01880, Desulfoferrodox, Desulfoferrodoxin	NA|77aa|down_4|NC_009633.1_4776326_4776557_-	NA	NA|480aa|down_5|NC_009633.1_4776613_4778053_-	PRK01642, cls, cardiolipin synthetase; Reviewed	NA|407aa|down_6|NC_009633.1_4778119_4779340_-	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|1172aa|down_7|NC_009633.1_4779715_4783231_-	TIGR02176, pyruvate_flavodoxin/ferrodoxin_oxidoreductase, pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric	NA|578aa|down_8|NC_009633.1_4783654_4785388_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|268aa|down_9|NC_009633.1_4785644_4786448_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)
