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_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	1	34112-34213	1	CRISPRCasFinder	no		cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	Orphan	ATCTGACCCCGATGTTGATGGTAATGTGCTGACAGT	36	1	1	34148-34177	NC_020419.1_307472-307501	NA	1	1	Orphan	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA|86aa|up_7|NC_020419.1_26612_26870_+,NA|75aa|up_6|NC_020419.1_26847_27072_+,NA|114aa|up_5|NC_020419.1_27077_27419_+,NA|155aa|down_0|NC_020419.1_37423_37888_-,NA|129aa|down_2|NC_020419.1_39104_39491_-,NA|46aa|down_4|NC_020419.1_41617_41755_-	NA|313aa|up_9|NC_020419.1_24869_25808_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|111aa|up_8|NC_020419.1_26001_26334_+	TIGR01068, Thioredoxin-like_protein_slr0233, thioredoxin	NA|86aa|up_7|NC_020419.1_26612_26870_+	NA	NA|75aa|up_6|NC_020419.1_26847_27072_+	NA	NA|114aa|up_5|NC_020419.1_27077_27419_+	NA	NA|302aa|up_4|NC_020419.1_27705_28611_+	TIGR01292, Thioredoxin_reductase, thioredoxin-disulfide reductase	NA|909aa|up_3|NC_020419.1_28607_31334_+	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|200aa|up_2|NC_020419.1_31330_31930_+	PRK00081, coaE, dephospho-CoA kinase; Reviewed	NA|424aa|up_1|NC_020419.1_32116_33388_+	PRK09376, rho, transcription termination factor Rho; Provisional	NA|186aa|up_0|NC_020419.1_33480_34038_+	pfam13274, DUF4065, Protein of unknown function (DUF4065)	NA|155aa|down_0|NC_020419.1_37423_37888_-	NA	NA|283aa|down_1|NC_020419.1_38219_39068_-	pfam13166, AAA_13, AAA domain	NA|129aa|down_2|NC_020419.1_39104_39491_-	NA	NA|506aa|down_3|NC_020419.1_39487_41005_-	COG2189, COG2189, Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]	NA|46aa|down_4|NC_020419.1_41617_41755_-	NA	NA|76aa|down_5|NC_020419.1_42189_42417_-	PRK12497, PRK12497, YraN family protein	NA|211aa|down_6|NC_020419.1_42521_43154_-	cd07182, RNase_HII_bacteria_HII_like, Bacterial Ribonuclease HII-like	NA|133aa|down_7|NC_020419.1_43642_44041_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|234aa|down_8|NC_020419.1_44186_44888_-	PRK00026, trmD, tRNA (guanine-N(1)-)-methyltransferase; Reviewed	NA|104aa|down_9|NC_020419.1_44877_45189_-	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional
GCF_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	2	91411-91502	2	CRISPRCasFinder	no	cas9,cas1,cas2	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	 Type II-B, or Type II-C?,Type II-A,Type II-C,Type II-B	TTTAACGATGGCAACCATTGACT	23	0	0	NA	NA	NA	1	1	TypeII-B,orTypeII-C?,TypeII-A,TypeII-C,TypeII-B	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA|67aa|up_5|NC_020419.1_83024_83225_+,NA|75aa|up_3|NC_020419.1_83579_83804_+,NA	NA|435aa|up_9|NC_020419.1_74314_75619_+	cd17246, RMtype1_S_SonII-TRD2-CR2_like, Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Shewanella oneidensis MR-1 S subunit (S	NA|1001aa|up_8|NC_020419.1_75618_78621_+	COG0610, COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]	NA|351aa|up_7|NC_020419.1_79076_80129_-	pfam13289, SIR2_2, SIR2-like domain	NA|529aa|up_6|NC_020419.1_81086_82673_-	pfam01555, N6_N4_Mtase, DNA methylase	NA|67aa|up_5|NC_020419.1_83024_83225_+	NA	NA|74aa|up_4|NC_020419.1_83217_83439_+	pfam13274, DUF4065, Protein of unknown function (DUF4065)	NA|75aa|up_3|NC_020419.1_83579_83804_+	NA	NA|878aa|up_2|NC_020419.1_84147_86781_-	PRK00252, alaS, alanyl-tRNA synthetase; Reviewed	NA|651aa|up_1|NC_020419.1_88018_89971_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|302aa|up_0|NC_020419.1_90127_91033_-	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit	NA|45aa|down_0|NC_020419.1_92797_92932_+	pfam00468, Ribosomal_L34, Ribosomal protein L34	NA|140aa|down_1|NC_020419.1_92941_93361_+	pfam00825, Ribonuclease_P, Ribonuclease P	NA|75aa|down_2|NC_020419.1_93364_93589_+	pfam01809, Haemolytic, Haemolytic domain	NA|520aa|down_3|NC_020419.1_93608_95168_+	PRK01318, PRK01318, membrane protein insertase; Provisional	NA|78aa|down_4|NC_020419.1_95224_95458_+	pfam14804, Jag_N, Jag N-terminus	NA|123aa|down_5|NC_020419.1_95585_95954_+	pfam13380, CoA_binding_2, CoA binding domain	NA|254aa|down_6|NC_020419.1_96074_96836_+	COG0637, COG0637, Predicted phosphatase/phosphohexomutase [General function prediction only]	NA|255aa|down_7|NC_020419.1_97505_98270_+	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]	NA|287aa|down_8|NC_020419.1_98307_99168_+	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|472aa|down_9|NC_020419.1_99371_100787_+	cd18037, DEXSc_Pif1_like, DEAD-box helicase domain of Pif1
GCF_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	3	102226-102327	3	CRISPRCasFinder	no	cas9,cas1,cas2	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	 Type II-B, or Type II-C?,Type II-A,Type II-C,Type II-B	GTTGGGGTATGTGTTATATCACATTGCAAACCATAG	36	1	4	102262-102291|102262-102291|102262-102291|102262-102291	NC_020420.1_11464-11435|NC_020420.1_11442-11413|NC_020420.1_11486-11457|NC_020420.1_11508-11479	NA	1	1	TypeII-B,orTypeII-C?,TypeII-A,TypeII-C,TypeII-B	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA,NA|58aa|down_6|NC_020419.1_112866_113040_+,NA|49aa|down_7|NC_020419.1_113688_113835_-	NA|45aa|up_9|NC_020419.1_92797_92932_+	pfam00468, Ribosomal_L34, Ribosomal protein L34	NA|140aa|up_8|NC_020419.1_92941_93361_+	pfam00825, Ribonuclease_P, Ribonuclease P	NA|75aa|up_7|NC_020419.1_93364_93589_+	pfam01809, Haemolytic, Haemolytic domain	NA|520aa|up_6|NC_020419.1_93608_95168_+	PRK01318, PRK01318, membrane protein insertase; Provisional	NA|78aa|up_5|NC_020419.1_95224_95458_+	pfam14804, Jag_N, Jag N-terminus	NA|123aa|up_4|NC_020419.1_95585_95954_+	pfam13380, CoA_binding_2, CoA binding domain	NA|254aa|up_3|NC_020419.1_96074_96836_+	COG0637, COG0637, Predicted phosphatase/phosphohexomutase [General function prediction only]	NA|255aa|up_2|NC_020419.1_97505_98270_+	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]	NA|287aa|up_1|NC_020419.1_98307_99168_+	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|472aa|up_0|NC_020419.1_99371_100787_+	cd18037, DEXSc_Pif1_like, DEAD-box helicase domain of Pif1	cas1|304aa|down_0|NC_020419.1_105400_106312_+	TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype II/NMENI	cas2|102aa|down_1|NC_020419.1_106316_106622_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	NA|275aa|down_2|NC_020419.1_107148_107973_-	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|372aa|down_3|NC_020419.1_107989_109105_-	TIGR04474, conserved_hypothetical_protein, three-Cys-motif partner protein	NA|467aa|down_4|NC_020419.1_109197_110598_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|415aa|down_5|NC_020419.1_110618_111863_-	PRK15452, PRK15452, putative protease; Provisional	NA|58aa|down_6|NC_020419.1_112866_113040_+	NA	NA|49aa|down_7|NC_020419.1_113688_113835_-	NA	NA|482aa|down_8|NC_020419.1_114008_115454_-	TIGR02692, putative_tRNA_nucleotidyltransferase, tRNA adenylyltransferase	NA|408aa|down_9|NC_020419.1_115481_116705_-	COG0612, PqqL, Predicted Zn-dependent peptidases [General function prediction only]
GCF_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	4	331298-338700	1,4,1,2,3,4	PILER-CR,CRISPRCasFinder,CRT,PILER-CR,PILER-CR,PILER-CR	no	cas3,cas5,cas8c,cas7,cas4,cas1,cas2,cas9	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	Type I-U,Type I-C, Type I-U?,Type II-A,Type II-C,Type II-B	GTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT,GTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT,GTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT,AAAGTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT,GTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT,GTCGCGCCCCGTGTGGGCGCGTGAATTGAAAT	32,32,32,35,32,32	1	2	333167-333199|333167-333199	NC_020421.1_2868-2900|NC_020421.1_2934-2966	I-C:I-C:I-C:NA:I-C:I-C	104,112,112,104,104,104	112	TypeI-U,TypeI-C,TypeI-U?,TypeII-A,TypeII-C,TypeII-B	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA,NA|54aa|down_4|NC_020419.1_346639_346801_-	NA|612aa|up_9|NC_020419.1_319361_321197_+	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|112aa|up_8|NC_020419.1_321541_321877_+	PRK00070, acpS, 4'-phosphopantetheinyl transferase; Provisional	NA|297aa|up_7|NC_020419.1_321848_322739_+	cd01171, YXKO-related, B	cas3|815aa|up_6|NC_020419.1_323149_325594_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|245aa|up_5|NC_020419.1_325595_326330_+	cd09752, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas8c|666aa|up_4|NC_020419.1_326329_328327_+	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1)	cas7|284aa|up_3|NC_020419.1_328310_329162_+	cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas4|213aa|up_2|NC_020419.1_329165_329804_+	cd09637, Cas4_I-A_I-B_I-C_I-D_II-B, CRISPR/Cas system-associated protein Cas4	cas1|345aa|up_1|NC_020419.1_329787_330822_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|97aa|up_0|NC_020419.1_330831_331122_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas9|1033aa|down_0|NC_020419.1_339127_342226_+	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	cas1|299aa|down_1|NC_020419.1_342222_343119_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|110aa|down_2|NC_020419.1_343115_343445_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	NA|406aa|down_3|NC_020419.1_345047_346265_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|54aa|down_4|NC_020419.1_346639_346801_-	NA	NA|400aa|down_5|NC_020419.1_347786_348986_+	PRK00049, PRK00049, elongation factor Tu; Reviewed	NA|51aa|down_6|NC_020419.1_349488_349641_+	PRK00504, rpmG, 50S ribosomal protein L33; Validated	NA|63aa|down_7|NC_020419.1_349755_349944_+	pfam00584, SecE, SecE/Sec61-gamma subunits of protein translocation complex	NA|177aa|down_8|NC_020419.1_349956_350487_+	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|145aa|down_9|NC_020419.1_350558_350993_+	PRK00140, rplK, 50S ribosomal protein L11; Validated
GCF_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	5	343493-344980	5,2,5,6	CRISPRCasFinder,CRT,PILER-CR,PILER-CR	no	cas5,cas8c,cas7,cas4,cas1,cas2,cas9	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	Type I-U,Type I-C, Type I-U?,Type II-A,Type II-C,Type II-B	GTTATAGTTTCCTTCCTCTCTCAGATGTGCTATAAT,GTTATAGTTTCCTTCCTCTCTCAGATGTGCTATAAT,TTATAGTTTCCTTCCTCTCTCAGATGTGCTATAAT,GTTATAGTTTCCTTCCTCTCTCAGATGTGCTATAAT	36,36,35,36	2	2	343529-343558|343726-343755	NC_020422.1_4055-4084|NC_020420.1_7585-7556	NA:NA:NA:NA	22,22,22,22	22	TypeI-U,TypeI-C,TypeI-U?,TypeII-A,TypeII-C,TypeII-B	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA,NA|54aa|down_1|NC_020419.1_346639_346801_-	cas3|815aa|up_9|NC_020419.1_323149_325594_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|245aa|up_8|NC_020419.1_325595_326330_+	cd09752, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas8c|666aa|up_7|NC_020419.1_326329_328327_+	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1)	cas7|284aa|up_6|NC_020419.1_328310_329162_+	cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas4|213aa|up_5|NC_020419.1_329165_329804_+	cd09637, Cas4_I-A_I-B_I-C_I-D_II-B, CRISPR/Cas system-associated protein Cas4	cas1|345aa|up_4|NC_020419.1_329787_330822_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|97aa|up_3|NC_020419.1_330831_331122_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas9|1033aa|up_2|NC_020419.1_339127_342226_+	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	cas1|299aa|up_1|NC_020419.1_342222_343119_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|110aa|up_0|NC_020419.1_343115_343445_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	NA|406aa|down_0|NC_020419.1_345047_346265_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|54aa|down_1|NC_020419.1_346639_346801_-	NA	NA|400aa|down_2|NC_020419.1_347786_348986_+	PRK00049, PRK00049, elongation factor Tu; Reviewed	NA|51aa|down_3|NC_020419.1_349488_349641_+	PRK00504, rpmG, 50S ribosomal protein L33; Validated	NA|63aa|down_4|NC_020419.1_349755_349944_+	pfam00584, SecE, SecE/Sec61-gamma subunits of protein translocation complex	NA|177aa|down_5|NC_020419.1_349956_350487_+	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|145aa|down_6|NC_020419.1_350558_350993_+	PRK00140, rplK, 50S ribosomal protein L11; Validated	NA|228aa|down_7|NC_020419.1_351095_351779_+	PRK05424, rplA, 50S ribosomal protein L1; Validated	NA|152aa|down_8|NC_020419.1_351857_352313_+	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed	NA|419aa|down_9|NC_020419.1_352323_353580_+	PRK09202, nusA, transcription elongation factor NusA; Validated
GCF_000146025.2_ASM14602v1	NC_020419	Candidatus Endomicrobium trichonymphae, complete genome	6	1019858-1019959	6	CRISPRCasFinder	no		cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	Orphan	CATGCTCTGCTGCCATTTATATTTGTATCTTACGGC	36	1	2	1019894-1019923|1019894-1019923	NC_020420.1_4320-4349|NC_020420.1_9577-9606	NA	1	1	Orphan	cas9,cas1,cas2,cas3,cas5,cas8c,cas7,cas4,DEDDh	NA|51aa|up_9|NC_020419.1_1009192_1009345_-,NA	NA|51aa|up_9|NC_020419.1_1009192_1009345_-	NA	NA|123aa|up_8|NC_020419.1_1009485_1009854_-	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase	NA|276aa|up_7|NC_020419.1_1009865_1010693_-	PRK00865, PRK00865, glutamate racemase; Provisional	NA|581aa|up_6|NC_020419.1_1010658_1012401_-	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3	NA|214aa|up_5|NC_020419.1_1012397_1013039_-	cd00429, RPE, Ribulose-5-phosphate 3-epimerase (RPE)	NA|238aa|up_4|NC_020419.1_1013099_1013813_-	COG2815, COG2815, Uncharacterized protein conserved in bacteria [Function unknown]	NA|333aa|up_3|NC_020419.1_1014193_1015192_-	PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional	NA|158aa|up_2|NC_020419.1_1015233_1015707_-	PRK11895, ilvH, acetolactate synthase 3 regulatory subunit; Reviewed	NA|579aa|up_1|NC_020419.1_1016088_1017825_-	TIGR00118, Probable_acetolactate_synthase_large_subunit, acetolactate synthase, large subunit, biosynthetic type	NA|550aa|up_0|NC_020419.1_1017936_1019586_-	PRK00911, PRK00911, dihydroxy-acid dehydratase; Provisional	NA|488aa|down_0|NC_020419.1_1020302_1021766_+	pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain	NA|132aa|down_1|NC_020419.1_1022298_1022694_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|144aa|down_2|NC_020419.1_1022706_1023138_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|252aa|down_3|NC_020419.1_1023401_1024157_-	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|466aa|down_4|NC_020419.1_1024279_1025677_-	PRK00260, cysS, cysteinyl-tRNA synthetase; Validated	NA|161aa|down_5|NC_020419.1_1025673_1026156_-	pfam02542, YgbB, YgbB family	NA|220aa|down_6|NC_020419.1_1026473_1027133_-	cd02516, CDP-ME_synthetase, CDP-ME synthetase is involved in mevalonate-independent isoprenoid production	NA|274aa|down_7|NC_020419.1_1027302_1028124_-	PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed	NA|483aa|down_8|NC_020419.1_1028288_1029737_+	cd09163, PLDc_CLS_unchar2_2, Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase	NA|297aa|down_9|NC_020419.1_1030087_1030978_+	pfam12705, PDDEXK_1, PD-(D/E)XK nuclease superfamily
