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_002025045.1_ASM202504v1	NZ_CP019992	Enterococcus faecium isolate 2014-VREF-268 chromosome, complete genome	1	1330273-1330382	1	CRISPRCasFinder	no		DEDDh,cas3,RT,csa3,cas14j,DinG,cas2	Orphan	TGATGAACAATACTGGTTGAGCAAAG	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,RT,csa3,cas14j,DinG,cas2,c2c10_CAS-V-U3	NA,NA	NA|215aa|up_9|NZ_CP019992.1_1322888_1323533_-	cd02205, CBS_pair_SF, Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains superfamily	NA|51aa|up_8|NZ_CP019992.1_1323694_1323847_+	PRK00504, rpmG, 50S ribosomal protein L33; Validated	NA|57aa|up_7|NZ_CP019992.1_1323870_1324041_+	pfam00584, SecE, SecE/Sec61-gamma subunits of protein translocation complex	NA|182aa|up_6|NZ_CP019992.1_1324141_1324687_+	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|302aa|up_5|NZ_CP019992.1_1324745_1325651_+	pfam06028, DUF915, Alpha/beta hydrolase of unknown function (DUF915)	NA|340aa|up_4|NZ_CP019992.1_1325823_1326843_+	cd04737, LOX_like_FMN, L-Lactate oxidase (LOX) FMN-binding domain	NA|291aa|up_3|NZ_CP019992.1_1326933_1327806_-	TIGR00718, Probable_L-serine_dehydratase_alpha_chain, L-serine dehydratase, iron-sulfur-dependent, alpha subunit	NA|223aa|up_2|NZ_CP019992.1_1327818_1328487_-	COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]	NA|141aa|up_1|NZ_CP019992.1_1328829_1329252_+	PRK00140, rplK, 50S ribosomal protein L11; Validated	NA|230aa|up_0|NZ_CP019992.1_1329355_1330045_+	PRK05424, rplA, 50S ribosomal protein L1; Validated	NA|168aa|down_0|NZ_CP019992.1_1330454_1330958_+	PRK00099, rplJ, 50S ribosomal protein L10; Reviewed	NA|123aa|down_1|NZ_CP019992.1_1331010_1331379_+	PRK00157, rplL, 50S ribosomal protein L7/L12; Reviewed	NA|230aa|down_2|NZ_CP019992.1_1331484_1332174_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|401aa|down_3|NZ_CP019992.1_1332255_1333458_+	cd17324, MFS_NepI_like, Purine ribonucleoside efflux pump NepI and similar transporters of the Major Facilitator Superfamily	NA|511aa|down_4|NZ_CP019992.1_1333648_1335181_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|234aa|down_5|NZ_CP019992.1_1335414_1336116_+	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	NA|238aa|down_6|NZ_CP019992.1_1336369_1337083_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|380aa|down_7|NZ_CP019992.1_1337391_1338531_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|322aa|down_8|NZ_CP019992.1_1338619_1339585_-	TIGR04171, ribonucleotide-diphosphate_reductase_subunit_beta, ribonucleoside-diphosphate reductase, class 1b, beta subunit	NA|720aa|down_9|NZ_CP019992.1_1339634_1341794_-	PRK07306, PRK07306, ribonucleotide-diphosphate reductase subunit alpha; Validated
GCF_002025045.1_ASM202504v1	NZ_CP019992	Enterococcus faecium isolate 2014-VREF-268 chromosome, complete genome	2	1609569-1609685	2	CRISPRCasFinder	no		DEDDh,cas3,RT,csa3,cas14j,DinG,cas2	Orphan	GTCAGAATGAACCTCATTCTGGCTCAGATTTTTTG	35	1	24	1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650|1609604-1609650	NZ_CP019992.1_604299-604345|NZ_CP019992.1_612736-612690|NZ_CP019992.1_914573-914619|NZ_CP019992.1_1138826-1138872|NZ_CP019992.1_1213461-1213507|NZ_CP019992.1_1471248-1471294|NZ_CP019992.1_1516525-1516571|NZ_CP019992.1_1525078-1525032|NZ_CP019992.1_1632672-1632718|NZ_CP019992.1_1767156-1767110|NZ_CP019992.1_1777279-1777325|NZ_CP019992.1_1796091-1796137|NZ_CP019992.1_1870073-1870119|NZ_CP019992.1_1931784-1931830|NZ_CP019992.1_2168380-2168426|NZ_CP019992.1_2447812-2447766|NZ_CP019992.1_2467225-2467179|NZ_CP019992.1_2562732-2562686|NZ_CP019992.1_2589039-2588993|NZ_CP019992.1_2635309-2635263|NZ_CP019992.1_2732430-2732384|NZ_CP019992.1_2802057-2802103|NZ_CP019993.1_126376-126422|NZ_CP019995.1_29067-29113	NA	1	1	Orphan	DEDDh,cas3,RT,csa3,cas14j,DinG,cas2,c2c10_CAS-V-U3	NA,NA|112aa|down_4|NZ_CP019992.1_1616426_1616762_+	NA|68aa|up_9|NZ_CP019992.1_1599674_1599878_+	pfam05532, CsbD, CsbD-like	NA|221aa|up_8|NZ_CP019992.1_1599978_1600641_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|501aa|up_7|NZ_CP019992.1_1600653_1602156_-	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|560aa|up_6|NZ_CP019992.1_1602703_1604383_+	COG0595, COG0595, mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]	NA|160aa|up_5|NZ_CP019992.1_1604509_1604989_+	cd00002, YbaK_deacylase, This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins	NA|227aa|up_4|NZ_CP019992.1_1605207_1605888_+	PRK00685, PRK00685, metal-dependent hydrolase; Provisional	NA|444aa|up_3|NZ_CP019992.1_1605895_1607227_+	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|321aa|up_2|NZ_CP019992.1_1607241_1608204_+	COG0618, COG0618, Exopolyphosphatase-related proteins [General function prediction only]	NA|113aa|up_1|NZ_CP019992.1_1608314_1608653_+	COG2824, PhnA, Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]	NA|236aa|up_0|NZ_CP019992.1_1608731_1609439_+	pfam04298, Zn_peptidase_2, Putative neutral zinc metallopeptidase	NA|432aa|down_0|NZ_CP019992.1_1611125_1612421_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|494aa|down_1|NZ_CP019992.1_1612585_1614067_-	pfam05043, Mga, Mga helix-turn-helix domain	NA|179aa|down_2|NZ_CP019992.1_1614375_1614912_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|457aa|down_3|NZ_CP019992.1_1614989_1616360_+	COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]	NA|112aa|down_4|NZ_CP019992.1_1616426_1616762_+	NA	NA|286aa|down_5|NZ_CP019992.1_1616842_1617700_-	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|172aa|down_6|NZ_CP019992.1_1617806_1618322_+	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|462aa|down_7|NZ_CP019992.1_1618638_1620024_+	cd00845, MPP_UshA_N_like, Escherichia coli UshA-like family, N-terminal metallophosphatase domain	NA|226aa|down_8|NZ_CP019992.1_1620060_1620738_+	pfam06265, DUF1027, Protein of unknown function (DUF1027)	NA|255aa|down_9|NZ_CP019992.1_1620745_1621510_+	cd07530, HAD_Pase_UmpH-like, UmpH/NagD family phosphatase, similar to Escherichia coli UmpH UMP phosphatase/NagD nucleotide phosphatase and Mycobacterium tuberculosis Rv1692 glycerol 3-phosphate phosphatase
GCF_002025045.1_ASM202504v1	NZ_CP019993	Enterococcus faecium isolate 2014-VREF-268 plasmid p268-1, complete sequence	1	14506-14634	1	CRISPRCasFinder	no	cas14j	cas14j	Unclear	GGTATGATTTTCATACCCTCTTGA	24	0	0	NA	NA	NA	2	2	TypeV	DEDDh,cas3,RT,csa3,cas14j,DinG,cas2,c2c10_CAS-V-U3	NA|50aa|up_6|NZ_CP019993.1_3735_3885_-,NA|791aa|up_3|NZ_CP019993.1_7636_10009_-,NA|111aa|up_0|NZ_CP019993.1_12865_13198_-,NA|65aa|down_0|NZ_CP019993.1_16413_16608_+	NA|162aa|up_9|NZ_CP019993.1_1666_2152_-	PRK07275, PRK07275, single-stranded DNA-binding protein; Provisional	NA|300aa|up_8|NZ_CP019993.1_2154_3054_-	pfam08843, AbiEii, Nucleotidyl transferase AbiEii toxin, Type IV TA system	NA|198aa|up_7|NZ_CP019993.1_3066_3660_-	pfam13338, AbiEi_4, Transcriptional regulator, AbiEi antitoxin	NA|50aa|up_6|NZ_CP019993.1_3735_3885_-	NA	NA|735aa|up_5|NZ_CP019993.1_3900_6105_-	PRK07726, PRK07726, DNA topoisomerase 3	NA|487aa|up_4|NZ_CP019993.1_6115_7576_-	pfam13155, Toprim_2, Toprim-like	NA|791aa|up_3|NZ_CP019993.1_7636_10009_-	NA	NA|417aa|up_2|NZ_CP019993.1_10418_11669_+	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|114aa|up_1|NZ_CP019993.1_11905_12247_-	pfam17400, DUF5406, Family of unknown function (DUF5406)	NA|111aa|up_0|NZ_CP019993.1_12865_13198_-	NA	NA|65aa|down_0|NZ_CP019993.1_16413_16608_+	NA	cas14j|383aa|down_1|NZ_CP019993.1_17314_18463_-	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|135aa|down_2|NZ_CP019993.1_18479_18884_-	pfam01797, Y1_Tnp, Transposase IS200 like	NA|85aa|down_3|NZ_CP019993.1_19242_19497_+	TIGR02609, hypothetical_protein_XAC1195, putative addiction module antidote	NA|106aa|down_4|NZ_CP019993.1_19497_19815_+	pfam05016, ParE_toxin, ParE toxin of type II toxin-antitoxin system, parDE	NA|303aa|down_5|NZ_CP019993.1_20448_21357_-	pfam13612, DDE_Tnp_1_3, Transposase DDE domain	NA|457aa|down_6|NZ_CP019993.1_21575_22946_+	pfam07510, DUF1524, Protein of unknown function (DUF1524)	NA|95aa|down_7|NZ_CP019993.1_22966_23251_+	pfam09639, YjcQ, YjcQ protein	NA|434aa|down_8|NZ_CP019993.1_24443_25745_+	pfam01610, DDE_Tnp_ISL3, Transposase	NA|66aa|down_9|NZ_CP019993.1_25873_26071_-	COG1278, CspC, Cold shock proteins [Transcription]
GCF_002025045.1_ASM202504v1	NZ_CP019993	Enterococcus faecium isolate 2014-VREF-268 plasmid p268-1, complete sequence	2	71989-72099	2	CRISPRCasFinder	no		cas14j	Orphan	GGCTCTTTGTCAATAAGGACTGATGGGTTGT	31	1	9	72020-72068|72020-72068|72020-72068|72020-72068|72020-72068|72020-72068|72020-72068|72020-72068|72020-72068	NZ_CP019992.1_358755-358707|NZ_CP019992.1_1609553-1609601|NZ_CP019992.1_1937681-1937729|NZ_CP019992.1_1960931-1960979|NZ_CP019992.1_2401932-2401884|NZ_CP019992.1_2609267-2609219|NZ_CP019992.1_2718144-2718096|NZ_CP019992.1_2776734-2776782|NZ_CP019992.1_2806483-2806435	NA	1	1	Orphan	DEDDh,cas3,RT,csa3,cas14j,DinG,cas2,c2c10_CAS-V-U3	NA,NA	NA|459aa|up_9|NZ_CP019993.1_60435_61812_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|400aa|up_8|NZ_CP019993.1_61941_63141_+	pfam00872, Transposase_mut, Transposase, Mutator family	NA|493aa|up_7|NZ_CP019993.1_63130_64609_+	pfam13751, DDE_Tnp_1_6, Transposase DDE domain	NA|430aa|up_6|NZ_CP019993.1_65957_67247_+	cd14748, PBP2_UgpB, The periplasmic-binding component of ABC transport system specific for sn-glycerol-3-phosphate; possesses type 2 periplasmic binding fold	NA|297aa|up_5|NZ_CP019993.1_67313_68204_+	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]	NA|272aa|up_4|NZ_CP019993.1_68193_69009_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|375aa|up_3|NZ_CP019993.1_69024_70149_+	COG3839, MalK, ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]	NA|268aa|up_2|NZ_CP019993.1_70126_70930_+	cd07402, MPP_GpdQ, Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain	NA|91aa|up_1|NZ_CP019993.1_71380_71653_+	TIGR02384, Putative_antitoxin_RelB, addiction module antitoxin, RelB/DinJ family	NA|110aa|up_0|NZ_CP019993.1_71642_71972_+	pfam02452, PemK_toxin, PemK-like, MazF-like toxin of type II toxin-antitoxin system	NA|425aa|down_0|NZ_CP019993.1_73565_74840_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|243aa|down_1|NZ_CP019993.1_75222_75951_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|525aa|down_2|NZ_CP019993.1_75928_77503_-	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|313aa|down_3|NZ_CP019993.1_77731_78670_+	COG4209, LplB, ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]	NA|304aa|down_4|NZ_CP019993.1_78681_79593_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|491aa|down_5|NZ_CP019993.1_79616_81089_+	pfam12010, DUF3502, Domain of unknown function (DUF3502)	NA|204aa|down_6|NZ_CP019993.1_81139_81751_+	COG5578, COG5578, Predicted integral membrane protein [Function unknown]	NA|638aa|down_7|NZ_CP019993.1_81780_83694_+	cd06565, GH20_GcnA-like, Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins	NA|994aa|down_8|NZ_CP019993.1_83821_86803_+	PRK10340, ebgA, cryptic beta-D-galactosidase subunit alpha; Reviewed	NA|554aa|down_9|NZ_CP019993.1_86799_88461_+	pfam07555, NAGidase, beta-N-acetylglucosaminidase
