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_001499655.1_PNK1	NZ_LN879502	Candidatus Protochlamydia naegleriophila strain KNic chromosome cPNK	1	1212614-1212714	1	CRISPRCasFinder	no		DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	Orphan	GAGGCCGATGATGATTCTAGCGA	23	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	NA|141aa|up_9|NZ_LN879502.1_1201627_1202050_+,NA|265aa|up_8|NZ_LN879502.1_1202122_1202917_-,NA|277aa|up_7|NZ_LN879502.1_1203113_1203944_+,NA|301aa|up_6|NZ_LN879502.1_1203982_1204885_-,NA|395aa|up_1|NZ_LN879502.1_1209149_1210334_-,NA|254aa|down_5|NZ_LN879502.1_1219770_1220532_-,NA|353aa|down_9|NZ_LN879502.1_1226593_1227652_+	NA|141aa|up_9|NZ_LN879502.1_1201627_1202050_+	NA	NA|265aa|up_8|NZ_LN879502.1_1202122_1202917_-	NA	NA|277aa|up_7|NZ_LN879502.1_1203113_1203944_+	NA	NA|301aa|up_6|NZ_LN879502.1_1203982_1204885_-	NA	NA|421aa|up_5|NZ_LN879502.1_1205300_1206563_+	pfam17991, Thioredoxin_10, Thioredoxin like C-terminal domain	NA|328aa|up_4|NZ_LN879502.1_1206766_1207750_+	cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like) FMN-binding domain	NA|52aa|up_3|NZ_LN879502.1_1208074_1208230_+	pfam11752, DUF3309, Protein of unknown function (DUF3309)	NA|259aa|up_2|NZ_LN879502.1_1208286_1209063_-	cd05346, SDR_c5, classical (c) SDR, subgroup 5	NA|395aa|up_1|NZ_LN879502.1_1209149_1210334_-	NA	NA|267aa|up_0|NZ_LN879502.1_1210522_1211323_-	cd01639, IMPase, IMPase, inositol monophosphatase and related domains	NA|176aa|down_0|NZ_LN879502.1_1212926_1213454_+	pfam05175, MTS, Methyltransferase small domain	NA|535aa|down_1|NZ_LN879502.1_1213530_1215135_-	PRK00741, prfC, peptide chain release factor 3; Provisional	NA|604aa|down_2|NZ_LN879502.1_1215249_1217061_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|514aa|down_3|NZ_LN879502.1_1217241_1218783_-	COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]	NA|234aa|down_4|NZ_LN879502.1_1218982_1219684_+	cd02910, cupin_Yhhw_N, Escherichia coli YhhW and YhaK and related proteins, pirin-like bicupin, N-terminal cupin domain	NA|254aa|down_5|NZ_LN879502.1_1219770_1220532_-	NA	NA|334aa|down_6|NZ_LN879502.1_1220707_1221709_-	pfam12937, F-box-like, F-box-like	NA|489aa|down_7|NZ_LN879502.1_1221851_1223318_-	pfam00773, RNB, RNB domain	NA|913aa|down_8|NZ_LN879502.1_1223592_1226331_+	COG1042, COG1042, Acyl-CoA synthetase (NDP forming) [Energy production and conversion]	NA|353aa|down_9|NZ_LN879502.1_1226593_1227652_+	NA
GCF_001499655.1_PNK1	NZ_LN879502	Candidatus Protochlamydia naegleriophila strain KNic chromosome cPNK	2	1359454-1359970	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	Type I-E	GTTTCCCCCGTGTATGCGGGGATAGACC,GTTTCCCCCGTGTATGCGGGGATAGACC,GTTTCCCCCGTGTATGCGGGGATAGACCT	28,28,29	0	0	NA	NA	NA:NA:NA	7,8,8	8	TypeI-E	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	NA,NA|46aa|down_3|NZ_LN879502.1_1363061_1363199_+	NA|353aa|up_9|NZ_LN879502.1_1348522_1349581_+	PRK09250, PRK09250, class I fructose-bisphosphate aldolase	NA|341aa|up_8|NZ_LN879502.1_1349699_1350722_+	pfam09924, DUF2156, Uncharacterized conserved protein (DUF2156)	cas3|890aa|up_7|NZ_LN879502.1_1350940_1353610_+	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	cas8e|501aa|up_6|NZ_LN879502.1_1353602_1355105_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|171aa|up_5|NZ_LN879502.1_1355094_1355607_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|391aa|up_4|NZ_LN879502.1_1355626_1356799_+	pfam09344, Cas_CT1975, CT1975-like protein	cas5|247aa|up_3|NZ_LN879502.1_1356795_1357536_+	TIGR01868, hypothetical_protein, CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI	cas6e|248aa|up_2|NZ_LN879502.1_1357532_1358276_+	smart01101, CRISPR_assoc, This domain forms an anti-parallel beta strand structure with flanking alpha helical regions	cas1|292aa|up_1|NZ_LN879502.1_1358275_1359151_+	cd09719, Cas1_I-E, CRISPR/Cas system-associated protein Cas1	cas2|95aa|up_0|NZ_LN879502.1_1359147_1359432_+	pfam09707, Cas_Cas2CT1978, CRISPR-associated protein (Cas_Cas2CT1978)	NA|222aa|down_0|NZ_LN879502.1_1360167_1360833_+	cd00884, beta_CA_cladeB, Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an active site by ionization of the zinc-bound water molecule and removal of a proton from the active site	NA|333aa|down_1|NZ_LN879502.1_1361209_1362208_+	cd06325, PBP1_ABC_unchar_transporter, type 1 periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions	NA|287aa|down_2|NZ_LN879502.1_1362204_1363065_+	COG4120, COG4120, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|46aa|down_3|NZ_LN879502.1_1363061_1363199_+	NA	NA|197aa|down_4|NZ_LN879502.1_1363182_1363773_+	COG1101, PhnK, ABC-type uncharacterized transport system, ATPase component [General function prediction only]	NA|159aa|down_5|NZ_LN879502.1_1363925_1364402_-	pfam03692, CxxCxxCC, Putative zinc- or iron-chelating domain	NA|202aa|down_6|NZ_LN879502.1_1364388_1364994_-	PRK10809, PRK10809, 30S ribosomal protein S5 alanine N-acetyltransferase	NA|251aa|down_7|NZ_LN879502.1_1365411_1366164_+	COG2071, COG2071, Predicted glutamine amidotransferases [General function prediction only]	NA|433aa|down_8|NZ_LN879502.1_1366160_1367459_+	TIGR00909, putative_amino_acid_transporter, amino acid transporter	NA|346aa|down_9|NZ_LN879502.1_1367499_1368537_-	pfam04371, PAD_porph, Porphyromonas-type peptidyl-arginine deiminase
GCF_001499655.1_PNK1	NZ_LN879502	Candidatus Protochlamydia naegleriophila strain KNic chromosome cPNK	3	1518904-1519040	3	CRISPRCasFinder	no		DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	Orphan	TTTTCTAATTCATCCATCTCTCTACGACGCTC	32	1	1	1518936-1519008	NZ_LN879503.1_110815-110887	NA	1	1	Orphan	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	NA|242aa|up_9|NZ_LN879502.1_1505615_1506341_+,NA|134aa|up_4|NZ_LN879502.1_1515803_1516205_-,NA|47aa|up_3|NZ_LN879502.1_1516809_1516950_-,NA|60aa|up_2|NZ_LN879502.1_1517023_1517203_-,NA|136aa|down_8|NZ_LN879502.1_1527745_1528153_-,NA|409aa|down_9|NZ_LN879502.1_1530820_1532047_+	NA|242aa|up_9|NZ_LN879502.1_1505615_1506341_+	NA	NA|115aa|up_8|NZ_LN879502.1_1508418_1508763_+	pfam03008, DUF234, Archaea bacterial proteins of unknown function	NA|921aa|up_7|NZ_LN879502.1_1509326_1512089_+	pfam01039, Carboxyl_trans, Carboxyl transferase domain	NA|388aa|up_6|NZ_LN879502.1_1512140_1513304_+	cd00831, CHS_like, Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs	NA|265aa|up_5|NZ_LN879502.1_1513410_1514205_-	pfam12937, F-box-like, F-box-like	NA|134aa|up_4|NZ_LN879502.1_1515803_1516205_-	NA	NA|47aa|up_3|NZ_LN879502.1_1516809_1516950_-	NA	NA|60aa|up_2|NZ_LN879502.1_1517023_1517203_-	NA	NA|44aa|up_1|NZ_LN879502.1_1517419_1517551_-	pfam13683, rve_3, Integrase core domain	NA|100aa|up_0|NZ_LN879502.1_1517581_1517881_-	pfam00665, rve, Integrase core domain	NA|629aa|down_0|NZ_LN879502.1_1519834_1521721_-	COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]	NA|171aa|down_1|NZ_LN879502.1_1522915_1523428_+	pfam01609, DDE_Tnp_1, Transposase DDE domain	NA|85aa|down_2|NZ_LN879502.1_1523402_1523657_+	pfam13564, DoxX_2, DoxX-like family	NA|494aa|down_3|NZ_LN879502.1_1523716_1525198_-	COG3046, COG3046, Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]	NA|169aa|down_4|NZ_LN879502.1_1525205_1525712_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|216aa|down_5|NZ_LN879502.1_1525708_1526356_-	pfam11086, DUF2878, Protein of unknown function (DUF2878)	NA|135aa|down_6|NZ_LN879502.1_1526557_1526962_-	cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR family member (DHRS)-12/FLJ13639-like, classical (c)-like SDRs	NA|70aa|down_7|NZ_LN879502.1_1526980_1527190_-	PRK07062, PRK07062, SDR family oxidoreductase	NA|136aa|down_8|NZ_LN879502.1_1527745_1528153_-	NA	NA|409aa|down_9|NZ_LN879502.1_1530820_1532047_+	NA
GCF_001499655.1_PNK1	NZ_LN879502	Candidatus Protochlamydia naegleriophila strain KNic chromosome cPNK	4	1521144-1521225	4	CRISPRCasFinder	no		DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	Orphan	TGTTGACTAAGATCTTCACGGAGCTGTA	28	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	NA|134aa|up_5|NZ_LN879502.1_1515803_1516205_-,NA|47aa|up_4|NZ_LN879502.1_1516809_1516950_-,NA|60aa|up_3|NZ_LN879502.1_1517023_1517203_-,NA|136aa|down_7|NZ_LN879502.1_1527745_1528153_-,NA|409aa|down_8|NZ_LN879502.1_1530820_1532047_+	NA|115aa|up_9|NZ_LN879502.1_1508418_1508763_+	pfam03008, DUF234, Archaea bacterial proteins of unknown function	NA|921aa|up_8|NZ_LN879502.1_1509326_1512089_+	pfam01039, Carboxyl_trans, Carboxyl transferase domain	NA|388aa|up_7|NZ_LN879502.1_1512140_1513304_+	cd00831, CHS_like, Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs	NA|265aa|up_6|NZ_LN879502.1_1513410_1514205_-	pfam12937, F-box-like, F-box-like	NA|134aa|up_5|NZ_LN879502.1_1515803_1516205_-	NA	NA|47aa|up_4|NZ_LN879502.1_1516809_1516950_-	NA	NA|60aa|up_3|NZ_LN879502.1_1517023_1517203_-	NA	NA|44aa|up_2|NZ_LN879502.1_1517419_1517551_-	pfam13683, rve_3, Integrase core domain	NA|100aa|up_1|NZ_LN879502.1_1517581_1517881_-	pfam00665, rve, Integrase core domain	NA|573aa|up_0|NZ_LN879502.1_1517936_1519655_-	COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]	NA|171aa|down_0|NZ_LN879502.1_1522915_1523428_+	pfam01609, DDE_Tnp_1, Transposase DDE domain	NA|85aa|down_1|NZ_LN879502.1_1523402_1523657_+	pfam13564, DoxX_2, DoxX-like family	NA|494aa|down_2|NZ_LN879502.1_1523716_1525198_-	COG3046, COG3046, Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]	NA|169aa|down_3|NZ_LN879502.1_1525205_1525712_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|216aa|down_4|NZ_LN879502.1_1525708_1526356_-	pfam11086, DUF2878, Protein of unknown function (DUF2878)	NA|135aa|down_5|NZ_LN879502.1_1526557_1526962_-	cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR family member (DHRS)-12/FLJ13639-like, classical (c)-like SDRs	NA|70aa|down_6|NZ_LN879502.1_1526980_1527190_-	PRK07062, PRK07062, SDR family oxidoreductase	NA|136aa|down_7|NZ_LN879502.1_1527745_1528153_-	NA	NA|409aa|down_8|NZ_LN879502.1_1530820_1532047_+	NA	NA|268aa|down_9|NZ_LN879502.1_1532251_1533055_-	pfam01925, TauE, Sulfite exporter TauE/SafE
GCF_001499655.1_PNK1	NZ_LN879502	Candidatus Protochlamydia naegleriophila strain KNic chromosome cPNK	5	1722264-1722563	5	CRISPRCasFinder	no		DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	Orphan	TCCCGTCGCTCCAGTTACGCCAGTAGCACCAGT	33	0	0	NA	NA	NA	4	4	Orphan	DinG,DEDDh,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	NA|256aa|up_3|NZ_LN879502.1_1717378_1718146_+,NA|228aa|up_2|NZ_LN879502.1_1718253_1718937_-,NA|156aa|down_3|NZ_LN879502.1_1728891_1729359_+	NA|325aa|up_9|NZ_LN879502.1_1710885_1711860_+	pfam13529, Peptidase_C39_2, Peptidase_C39 like family	NA|216aa|up_8|NZ_LN879502.1_1711973_1712621_+	TIGR00697, Uncharacterized_protein_HI_0862, conserved hypothetical integral membrane protein	NA|377aa|up_7|NZ_LN879502.1_1712617_1713748_+	PRK01008, PRK01008, queuine tRNA-ribosyltransferase; Provisional	NA|143aa|up_6|NZ_LN879502.1_1714052_1714481_+	PRK00567, mscL, large-conductance mechanosensitive channel protein MscL	NA|431aa|up_5|NZ_LN879502.1_1714528_1715821_+	cd00616, AHBA_syn, 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn)	NA|484aa|up_4|NZ_LN879502.1_1715833_1717285_+	pfam05199, GMC_oxred_C, GMC oxidoreductase	NA|256aa|up_3|NZ_LN879502.1_1717378_1718146_+	NA	NA|228aa|up_2|NZ_LN879502.1_1718253_1718937_-	NA	NA|363aa|up_1|NZ_LN879502.1_1718954_1720043_-	cd02511, Beta4Glucosyltransferase, UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide	NA|459aa|up_0|NZ_LN879502.1_1720171_1721548_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|85aa|down_0|NZ_LN879502.1_1723389_1723644_+	cd00854, NagA, N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate	NA|788aa|down_1|NZ_LN879502.1_1724226_1726590_-	COG0433, COG0433,  HerA helicase [Replication, recombination, and repair]	NA|532aa|down_2|NZ_LN879502.1_1727184_1728780_+	pfam00617, RasGEF, RasGEF domain	NA|156aa|down_3|NZ_LN879502.1_1728891_1729359_+	NA	NA|113aa|down_4|NZ_LN879502.1_1729428_1729767_-	cd02210, cupin_BLR2406-like, Bradyrhizobium japonicum BLR2406 and related proteins, cupin domain	NA|363aa|down_5|NZ_LN879502.1_1730194_1731283_-	cd00609, AAT_like, Aspartate aminotransferase family	NA|132aa|down_6|NZ_LN879502.1_1731200_1731596_-	cd02026, PRK, Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes	NA|168aa|down_7|NZ_LN879502.1_1732466_1732970_-	cd04333, ProX_deacylase, This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens  ProX Ala-tRNA(Pro) deacylase and also the cis-acting prolyl-tRNA synthetase-editing domain (ProRS-INS)	NA|144aa|down_8|NZ_LN879502.1_1732962_1733394_-	pfam09391, DUF2000, Protein of unknown function (DUF2000)	NA|489aa|down_9|NZ_LN879502.1_1733416_1734883_-	COG0384, COG0384, Predicted epimerase, PhzC/PhzF homolog [General function prediction only]
