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_012222705.1_ASM1222270v1	NZ_CP037955	Enterococcus hirae strain CQP3-9 chromosome, complete genome	1	295405-295611	1	CRISPRCasFinder	no		cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	Orphan	TAACAAGTTTAGATGTAAGTGGCTTTGATACCAGTAACGTAACAAATATGA	51	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	NA|189aa|up_1|NZ_CP037955.1_293647_294214_-,NA|60aa|up_0|NZ_CP037955.1_294442_294622_+,NA|71aa|down_6|NZ_CP037955.1_304391_304604_+	NA|251aa|up_9|NZ_CP037955.1_280677_281430_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|603aa|up_8|NZ_CP037955.1_281444_283253_+	COG4591, LolE, ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]	NA|702aa|up_7|NZ_CP037955.1_283625_285731_-	PRK08581, PRK08581, amidase domain-containing protein	NA|342aa|up_6|NZ_CP037955.1_286053_287079_-	cd19976, PBP1_DegA_Like, ligand-binding domain of putative DNA transcription regulators highly similar to that of the transcription regulator DegA	NA|202aa|up_5|NZ_CP037955.1_287163_287769_-	PRK11440, PRK11440, putative hydrolase; Provisional	NA|234aa|up_4|NZ_CP037955.1_287932_288634_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|904aa|up_3|NZ_CP037955.1_288643_291355_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|543aa|up_2|NZ_CP037955.1_291624_293253_+	TIGR02403, Trehalose-6-phosphate_hydrolase, alpha,alpha-phosphotrehalase	NA|189aa|up_1|NZ_CP037955.1_293647_294214_-	NA	NA|60aa|up_0|NZ_CP037955.1_294442_294622_+	NA	NA|68aa|down_0|NZ_CP037955.1_297545_297749_-	pfam16935, Hol_Tox, Putative Holin-like Toxin (Hol-Tox)	NA|396aa|down_1|NZ_CP037955.1_298247_299435_-	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|506aa|down_2|NZ_CP037955.1_299729_301247_+	cd01017, AdcA, Metal binding protein AdcA	NA|243aa|down_3|NZ_CP037955.1_301351_302080_-	COG3279, LytT, Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]	NA|426aa|down_4|NZ_CP037955.1_302092_303370_-	cd16935, HATPase_AgrC-ComD-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Staphylococcus aureus AgrC and Streptococcus pneumoniae ComD which are involved in quorum sensing	NA|201aa|down_5|NZ_CP037955.1_303510_304113_-	smart00793, AgrB, Accessory gene regulator B	NA|71aa|down_6|NZ_CP037955.1_304391_304604_+	NA	NA|230aa|down_7|NZ_CP037955.1_304731_305421_-	pfam06912, DUF1275, Protein of unknown function (DUF1275)	NA|735aa|down_8|NZ_CP037955.1_305598_307803_+	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]	NA|135aa|down_9|NZ_CP037955.1_308031_308436_+	cd03032, ArsC_Spx, Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes
GCF_012222705.1_ASM1222270v1	NZ_CP037955	Enterococcus hirae strain CQP3-9 chromosome, complete genome	2	383372-383473	2	CRISPRCasFinder	no		cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	Orphan	GTGAATCACTAAGAACGAAGTGA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	NA,NA|243aa|down_2|NZ_CP037955.1_384958_385687_+,NA|125aa|down_3|NZ_CP037955.1_385700_386075_+,NA|78aa|down_6|NZ_CP037955.1_388908_389142_+	NA|168aa|up_9|NZ_CP037955.1_375730_376234_+	pfam06177, QueT, QueT transporter	NA|214aa|up_8|NZ_CP037955.1_376700_377342_-	cd02205, CBS_pair_SF, Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains superfamily	NA|51aa|up_7|NZ_CP037955.1_377502_377655_+	PRK00504, rpmG, 50S ribosomal protein L33; Validated	NA|57aa|up_6|NZ_CP037955.1_377673_377844_+	pfam00584, SecE, SecE/Sec61-gamma subunits of protein translocation complex	NA|182aa|up_5|NZ_CP037955.1_377943_378489_+	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|295aa|up_4|NZ_CP037955.1_378732_379617_+	pfam06028, DUF915, Alpha/beta hydrolase of unknown function (DUF915)	NA|289aa|up_3|NZ_CP037955.1_379869_380736_-	TIGR00718, Probable_L-serine_dehydratase_alpha_chain, L-serine dehydratase, iron-sulfur-dependent, alpha subunit	NA|223aa|up_2|NZ_CP037955.1_380749_381418_-	COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]	NA|141aa|up_1|NZ_CP037955.1_381956_382379_+	PRK00140, rplK, 50S ribosomal protein L11; Validated	NA|230aa|up_0|NZ_CP037955.1_382482_383172_+	PRK05424, rplA, 50S ribosomal protein L1; Validated	NA|168aa|down_0|NZ_CP037955.1_383549_384053_+	PRK00099, rplJ, 50S ribosomal protein L10; Reviewed	NA|123aa|down_1|NZ_CP037955.1_384105_384474_+	PRK00157, rplL, 50S ribosomal protein L7/L12; Reviewed	NA|243aa|down_2|NZ_CP037955.1_384958_385687_+	NA	NA|125aa|down_3|NZ_CP037955.1_385700_386075_+	NA	NA|226aa|down_4|NZ_CP037955.1_386466_387144_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|395aa|down_5|NZ_CP037955.1_387320_388505_+	cd17324, MFS_NepI_like, Purine ribonucleoside efflux pump NepI and similar transporters of the Major Facilitator Superfamily	NA|78aa|down_6|NZ_CP037955.1_388908_389142_+	NA	NA|101aa|down_7|NZ_CP037955.1_389166_389469_+	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|510aa|down_8|NZ_CP037955.1_389812_391342_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|234aa|down_9|NZ_CP037955.1_391772_392474_+	cd01399, GlcN6P_deaminase, GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium
GCF_012222705.1_ASM1222270v1	NZ_CP037955	Enterococcus hirae strain CQP3-9 chromosome, complete genome	3	1406058-1406149	3	CRISPRCasFinder	no		cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	Orphan	CATTCAAAACAACATAGCTCTAAAAC	26	0	0	NA	NA	II-A,II-B	1	1	Orphan	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	NA|215aa|up_7|NZ_CP037955.1_1398058_1398703_-,NA	NA|294aa|up_9|NZ_CP037955.1_1395783_1396665_-	COG4120, COG4120, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|347aa|up_8|NZ_CP037955.1_1396661_1397702_-	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|215aa|up_7|NZ_CP037955.1_1398058_1398703_-	NA	NA|570aa|up_6|NZ_CP037955.1_1398905_1400615_+	pfam05833, FbpA, Fibronectin-binding protein A N-terminus (FbpA)	NA|271aa|up_5|NZ_CP037955.1_1400912_1401725_-	cd13600, PBP2_lipoprotein_like_1, Putative periplasmic-binding component of ABC-type methionine uptake transporter system-like; the type 2 periplasmic binding protein fold	NA|224aa|up_4|NZ_CP037955.1_1401736_1402408_-	COG2011, AbcD, ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]	NA|241aa|up_3|NZ_CP037955.1_1402404_1403127_-	cd03258, ABC_MetN_methionine_transporter, ATP-binding cassette domain of methionine transporter	NA|303aa|up_2|NZ_CP037955.1_1403523_1404432_-	COG0583, LysR, Transcriptional regulator [Transcription]	NA|235aa|up_1|NZ_CP037955.1_1404428_1405133_-	cd03124, alpha_CA_prokaryotic_like, Carbonic anhydrase alpha, prokaryotic-like subfamily	NA|214aa|up_0|NZ_CP037955.1_1405164_1405806_-	pfam12917, HD_2, HD containing hydrolase-like enzyme	NA|217aa|down_0|NZ_CP037955.1_1406331_1406982_-	PRK00455, pyrE, orotate phosphoribosyltransferase; Validated	NA|239aa|down_1|NZ_CP037955.1_1406963_1407680_-	PRK00230, PRK00230, orotidine-5'-phosphate decarboxylase	NA|310aa|down_2|NZ_CP037955.1_1407676_1408606_-	PRK07259, PRK07259, dihydroorotate dehydrogenase	NA|259aa|down_3|NZ_CP037955.1_1408602_1409379_-	PRK00054, PRK00054, dihydroorotate dehydrogenase electron transfer subunit; Reviewed	NA|1062aa|down_4|NZ_CP037955.1_1409557_1412743_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|359aa|down_5|NZ_CP037955.1_1412745_1413822_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|427aa|down_6|NZ_CP037955.1_1413827_1415108_-	PRK09357, pyrC, dihydroorotase; Validated	NA|309aa|down_7|NZ_CP037955.1_1415126_1416053_-	PRK00856, pyrB, aspartate carbamoyltransferase catalytic subunit	NA|428aa|down_8|NZ_CP037955.1_1416065_1417349_-	PRK10720, PRK10720, uracil transporter; Provisional	NA|180aa|down_9|NZ_CP037955.1_1417362_1417902_-	PRK05205, PRK05205, bifunctional pyr operon transcriptional regulator/uracil phosphoribosyltransferase PyrR
GCF_012222705.1_ASM1222270v1	NZ_CP037955	Enterococcus hirae strain CQP3-9 chromosome, complete genome	4	2437171-2437391	4	CRISPRCasFinder	no	csn2,cas2,cas1	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	Type II-A	TTTTGGAAACATTCAAAACAACATAGCTCTAAAACC	36	0	0	NA	NA	II-A,II-B	2	2	TypeII-A	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	NA,NA|43aa|down_3|NZ_CP037955.1_2444028_2444157_+,NA|282aa|down_5|NZ_CP037955.1_2446032_2446878_-	NA|151aa|up_9|NZ_CP037955.1_2423443_2423896_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|200aa|up_8|NZ_CP037955.1_2423991_2424591_-	cd04672, Nudix_Hydrolase_14, Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X	NA|485aa|up_7|NZ_CP037955.1_2424846_2426301_+	pfam18333, ssDNA_DBD, Non-canonical single-stranded DNA-binding domain	NA|848aa|up_6|NZ_CP037955.1_2426438_2428982_-	cd02080, P-type_ATPase_cation, P-type cation-transporting ATPase similar to Exiguobacterium aurantiacum Mna, an Na(+)-ATPase, and Synechocystis sp	NA|440aa|up_5|NZ_CP037955.1_2429091_2430411_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|477aa|up_4|NZ_CP037955.1_2430427_2431858_-	TIGR03813, put_Glu_GABA_T, putative glutamate/gamma-aminobutyrate antiporter	NA|611aa|up_3|NZ_CP037955.1_2432173_2434006_-	TIGR03811, tyrosine_decarboxylase, tyrosine decarboxylase, Enterococcus type	NA|477aa|up_2|NZ_CP037955.1_2434501_2435932_+	pfam08280, HTH_Mga, M protein trans-acting positive regulator (MGA) HTH domain	NA|120aa|up_1|NZ_CP037955.1_2436166_2436526_-	pfam07784, DUF1622, Protein of unknown function (DUF1622)	NA|124aa|up_0|NZ_CP037955.1_2436515_2436887_-	pfam07784, DUF1622, Protein of unknown function (DUF1622)	csn2|220aa|down_0|NZ_CP037955.1_2437506_2438166_-	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	cas2|115aa|down_1|NZ_CP037955.1_2438155_2438500_-	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	cas1|289aa|down_2|NZ_CP037955.1_2438496_2439363_-	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	NA|43aa|down_3|NZ_CP037955.1_2444028_2444157_+	NA	NA|565aa|down_4|NZ_CP037955.1_2444210_2445905_+	PRK13977, PRK13977, myosin-cross-reactive antigen; Provisional	NA|282aa|down_5|NZ_CP037955.1_2446032_2446878_-	NA	NA|378aa|down_6|NZ_CP037955.1_2447167_2448301_+	cd08283, FDH_like_1, Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1	NA|105aa|down_7|NZ_CP037955.1_2448328_2448643_+	pfam14145, YrhK, YrhK-like protein	NA|156aa|down_8|NZ_CP037955.1_2448940_2449408_-	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|418aa|down_9|NZ_CP037955.1_2449678_2450932_-	COG1455, CelB, Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]
GCF_012222705.1_ASM1222270v1	NZ_CP037956	Enterococcus hirae strain CQP3-9 plasmid pCQP3-9_1, complete sequence	1	35142-35269	1	CRISPRCasFinder	no			Orphan	TCAGAGGGTATGAAAATCATACC	23	1	2	35228-35246|35228-35246	NZ_CP037955.1_1099942-1099960|NZ_CP037955.1_1821743-1821761	NA	2	2	Orphan	cas3,DEDDh,cas2,DinG,csa3,c2c9_V-U4,cas14j,csn2,cas1	NA|183aa|up_3|NZ_CP037956.1_31133_31682_-,NA|65aa|up_0|NZ_CP037956.1_33270_33465_-,NA|111aa|down_0|NZ_CP037956.1_36591_36924_+,NA|97aa|down_2|NZ_CP037956.1_37901_38192_+,NA|78aa|down_3|NZ_CP037956.1_38383_38617_+,NA|80aa|down_4|NZ_CP037956.1_38683_38923_+,NA|83aa|down_8|NZ_CP037956.1_43311_43560_+	NA|191aa|up_9|NZ_CP037956.1_25603_26176_-	cd01043, DPS, DPS protein, ferritin-like diiron-binding domain	NA|205aa|up_8|NZ_CP037956.1_26646_27261_+	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain	NA|368aa|up_7|NZ_CP037956.1_27311_28415_-	pfam07751, Abi_2, Abi-like protein	NA|227aa|up_6|NZ_CP037956.1_28904_29585_-	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|174aa|up_5|NZ_CP037956.1_29612_30134_-	cd07473, Peptidases_S8_Subtilisin_like, Peptidase S8 family domain in Subtilisin-like proteins	NA|243aa|up_4|NZ_CP037956.1_30145_30874_-	cd07484, Peptidases_S8_Thermitase_like, Peptidase S8 family domain in Thermitase-like proteins	NA|183aa|up_3|NZ_CP037956.1_31133_31682_-	NA	NA|286aa|up_2|NZ_CP037956.1_31682_32540_-	pfam13614, AAA_31, AAA domain	NA|62aa|up_1|NZ_CP037956.1_32825_33011_-	pfam15781, ParE-like_toxin, ParE-like toxin of type II bacterial toxin-antitoxin system	NA|65aa|up_0|NZ_CP037956.1_33270_33465_-	NA	NA|111aa|down_0|NZ_CP037956.1_36591_36924_+	NA	NA|114aa|down_1|NZ_CP037956.1_37541_37883_+	pfam17400, DUF5406, Family of unknown function (DUF5406)	NA|97aa|down_2|NZ_CP037956.1_37901_38192_+	NA	NA|78aa|down_3|NZ_CP037956.1_38383_38617_+	NA	NA|80aa|down_4|NZ_CP037956.1_38683_38923_+	NA	NA|224aa|down_5|NZ_CP037956.1_39008_39680_+	cd06165, Sortase_A, Sortase domain found in class A sortases	NA|659aa|down_6|NZ_CP037956.1_39732_41709_+	pfam16569, GramPos_pilinBB, Gram-positive pilin backbone subunit 2, Cna-B-like domain	NA|276aa|down_7|NZ_CP037956.1_42474_43302_+	PRK11907, PRK11907, bifunctional 2',3'-cyclic-nucleotide 2'-phosphodiesterase/3'-nucleotidase	NA|83aa|down_8|NZ_CP037956.1_43311_43560_+	NA	NA|704aa|down_9|NZ_CP037956.1_43590_45702_+	TIGR04226, Fimbrial_subunit_type_2, fimbrial isopeptide formation D2 domain
