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_010092385.1_ASM1009238v1	NZ_CP048019	Pediococcus acidilactici strain CACC 537 chromosome, complete genome	1	78972-79075	1	CRISPRCasFinder	no		DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	Orphan	CAGATGCTCTACCAACTGAGCTAA	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	NA|244aa|up_0|NZ_CP048019.1_76296_77028_+,NA|63aa|down_6|NZ_CP048019.1_90997_91186_-,NA|85aa|down_9|NZ_CP048019.1_95742_95997_-	NA|154aa|up_9|NZ_CP048019.1_65003_65465_-	pfam00582, Usp, Universal stress protein family	NA|277aa|up_8|NZ_CP048019.1_65590_66421_+	cd01171, YXKO-related, B	NA|240aa|up_7|NZ_CP048019.1_66527_67247_-	cd02553, PseudoU_synth_RsuA, Pseudouridine synthase, Escherichia coli RsuA like	NA|561aa|up_6|NZ_CP048019.1_67257_68940_-	cd13124, MATE_SpoVB_like, Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins	NA|806aa|up_5|NZ_CP048019.1_69195_71613_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|212aa|up_4|NZ_CP048019.1_72019_72655_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|188aa|up_3|NZ_CP048019.1_72647_73211_+	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|490aa|up_2|NZ_CP048019.1_73289_74759_-	cd17502, MFS_Azr1_MDR_like, Saccharomyces cerevisiae Azole resistance protein 1 (Azr1p), and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|397aa|up_1|NZ_CP048019.1_74934_76125_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|244aa|up_0|NZ_CP048019.1_76296_77028_+	NA	NA|335aa|down_0|NZ_CP048019.1_84648_85653_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|339aa|down_1|NZ_CP048019.1_85698_86715_-	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase	NA|396aa|down_2|NZ_CP048019.1_86745_87933_-	cd03817, GT4_UGDG-like, UDP-Glc:1,2-diacylglycerol 3-a-glucosyltransferase and similar proteins	NA|258aa|down_3|NZ_CP048019.1_88018_88792_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|575aa|down_4|NZ_CP048019.1_88864_90589_-	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|89aa|down_5|NZ_CP048019.1_90588_90855_-	PRK13780, PRK13780, phosphocarrier protein HPr; Provisional	NA|63aa|down_6|NZ_CP048019.1_90997_91186_-	NA	NA|736aa|down_7|NZ_CP048019.1_91401_93609_+	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|326aa|down_8|NZ_CP048019.1_94146_95124_-	PRK05458, PRK05458, guanosine 5'-monophosphate oxidoreductase; Provisional	NA|85aa|down_9|NZ_CP048019.1_95742_95997_-	NA
GCF_010092385.1_ASM1009238v1	NZ_CP048019	Pediococcus acidilactici strain CACC 537 chromosome, complete genome	2	281170-282657	2,1,1	CRISPRCasFinder,CRT,PILER-CR	no	csn2,cas2,cas1,cas9	DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	Type II-B,Type II-A,Type II-C	GATCTTAACCTTATTGATTTAACATCCTTCTGAAAC,GATCTTAACCTTATTGATTTAACATCCTTCTGAAAC,GATCTTAACCTTATTGATTTAACATCCTTCTGAAAC	36,36,36	0	0	NA	NA	NA:NA:NA	22,22,21	22	TypeII-B,TypeII-A,TypeII-C	DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	NA,NA	NA|788aa|up_9|NZ_CP048019.1_268787_271151_-	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|185aa|up_8|NZ_CP048019.1_271299_271854_-	COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]	NA|129aa|up_7|NZ_CP048019.1_271982_272369_-	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|440aa|up_6|NZ_CP048019.1_272653_273973_-	COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	NA|213aa|up_5|NZ_CP048019.1_274004_274643_+	COG1739, COG1739, Uncharacterized conserved protein [Function unknown]	NA|392aa|up_4|NZ_CP048019.1_274710_275886_-	cd06853, GT_WecA_like, This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins	NA|611aa|up_3|NZ_CP048019.1_276107_277940_-	pfam13520, AA_permease_2, Amino acid permease	NA|541aa|up_2|NZ_CP048019.1_278239_279862_-	PRK00013, groEL, chaperonin GroEL; Reviewed	NA|95aa|up_1|NZ_CP048019.1_279884_280169_-	PRK00364, groES, co-chaperonin GroES; Reviewed	NA|216aa|up_0|NZ_CP048019.1_280358_281006_+	pfam02517, Abi, CAAX protease self-immunity	csn2|224aa|down_0|NZ_CP048019.1_282685_283357_-	cd12218, Csn2, CRISPR/Cas system-associated protein Csn2	cas2|102aa|down_1|NZ_CP048019.1_283353_283659_-	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	cas1|302aa|down_2|NZ_CP048019.1_283636_284542_-	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas9|1367aa|down_3|NZ_CP048019.1_284759_288860_-	pfam16592, Cas9_REC, REC lobe of CRISPR-associated endonuclease Cas9	NA|194aa|down_4|NZ_CP048019.1_289043_289625_+	pfam09726, Macoilin, Macoilin family	NA|845aa|down_5|NZ_CP048019.1_289851_292386_-	cd09601, M1_APN-Q_like, Peptidase M1 aminopeptidase N catalytic domain family which includes aminopeptidase N (APN), aminopeptidase Q (APQ), tricorn interacting factor F3, and endoplasmic reticulum aminopeptidase 1 (ERAP1)	NA|470aa|down_6|NZ_CP048019.1_292412_293822_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|215aa|down_7|NZ_CP048019.1_294014_294659_-	cd05243, SDR_a5, atypical (a) SDRs, subgroup 5	NA|401aa|down_8|NZ_CP048019.1_295056_296259_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|67aa|down_9|NZ_CP048019.1_296260_296461_-	pfam11372, DUF3173, Domain of unknown function (DUF3173)
GCF_010092385.1_ASM1009238v1	NZ_CP048019	Pediococcus acidilactici strain CACC 537 chromosome, complete genome	3	1064365-1064513	3	CRISPRCasFinder	no		DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	Orphan	AATTTGGTTAGCCGGAGAGAGCTGGGTTACAAAACCCGTTTCGACTA	47	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	NA,NA|82aa|down_2|NZ_CP048019.1_1067485_1067731_-,NA|181aa|down_5|NZ_CP048019.1_1070030_1070573_+,NA|176aa|down_6|NZ_CP048019.1_1070717_1071245_+,NA|70aa|down_8|NZ_CP048019.1_1072510_1072720_-	NA|493aa|up_9|NZ_CP048019.1_1054512_1055991_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|151aa|up_8|NZ_CP048019.1_1056142_1056595_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|194aa|up_7|NZ_CP048019.1_1056898_1057480_+	COG3601, COG3601, Predicted membrane protein [Function unknown]	NA|175aa|up_6|NZ_CP048019.1_1058022_1058547_+	COG1268, BioY, Uncharacterized conserved protein [General function prediction only]	NA|50aa|up_5|NZ_CP048019.1_1058832_1058982_+	pfam12459, DUF3687, D-Ala-teichoic acid biosynthesis protein	NA|509aa|up_4|NZ_CP048019.1_1058996_1060523_+	PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase subunit DltA	NA|401aa|up_3|NZ_CP048019.1_1060522_1061725_+	TIGR04091, hypothetical_protein, D-alanyl-lipoteichoic acid biosynthesis protein DltB	NA|81aa|up_2|NZ_CP048019.1_1061741_1061984_+	PRK05087, PRK05087, D-alanine--poly(phosphoribitol) ligase subunit DltC	NA|423aa|up_1|NZ_CP048019.1_1061994_1063263_+	TIGR04092, hypothetical_protein, D-alanyl-lipoteichoic acid biosynthesis protein DltD	NA|277aa|up_0|NZ_CP048019.1_1063449_1064280_+	pfam02588, YitT_membrane, Uncharacterized 5xTM membrane BCR, YitT family COG1284	NA|620aa|down_0|NZ_CP048019.1_1064616_1066476_-	pfam13454, NAD_binding_9, FAD-NAD(P)-binding	NA|213aa|down_1|NZ_CP048019.1_1066734_1067373_+	pfam13419, HAD_2, Haloacid dehalogenase-like hydrolase	NA|82aa|down_2|NZ_CP048019.1_1067485_1067731_-	NA	NA|203aa|down_3|NZ_CP048019.1_1067990_1068599_+	pfam02517, Abi, CAAX protease self-immunity	NA|447aa|down_4|NZ_CP048019.1_1068617_1069958_+	cd13138, MATE_yoeA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA	NA|181aa|down_5|NZ_CP048019.1_1070030_1070573_+	NA	NA|176aa|down_6|NZ_CP048019.1_1070717_1071245_+	NA	NA|342aa|down_7|NZ_CP048019.1_1071433_1072459_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|70aa|down_8|NZ_CP048019.1_1072510_1072720_-	NA	NA|271aa|down_9|NZ_CP048019.1_1073123_1073936_-	PRK10513, PRK10513, sugar phosphate phosphatase; Provisional
GCF_010092385.1_ASM1009238v1	NZ_CP048019	Pediococcus acidilactici strain CACC 537 chromosome, complete genome	4	1566692-1566778	4	CRISPRCasFinder	no		DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	Orphan	TTACAAGACACAGACTGCTGACTTGAT	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csn2,cas2,cas1,cas9,csa3,DinG,cas3	NA|62aa|up_3|NZ_CP048019.1_1557357_1557543_+,NA|80aa|down_0|NZ_CP048019.1_1568682_1568922_+,NA|120aa|down_1|NZ_CP048019.1_1569070_1569430_+,NA|141aa|down_8|NZ_CP048019.1_1576596_1577019_-,NA|89aa|down_9|NZ_CP048019.1_1577478_1577745_-	NA|111aa|up_9|NZ_CP048019.1_1554699_1555032_+	cd08054, gp6, Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins	NA|116aa|up_8|NZ_CP048019.1_1555021_1555369_+	pfam05521, Phage_H_T_join, Phage head-tail joining protein	NA|136aa|up_7|NZ_CP048019.1_1555371_1555779_+	TIGR01725, hypothetical_protein, phage protein, HK97 gp10 family	NA|127aa|up_6|NZ_CP048019.1_1555778_1556159_+	pfam05657, DUF806, Protein of unknown function (DUF806)	NA|230aa|up_5|NZ_CP048019.1_1556172_1556862_+	pfam04630, Phage_TTP_1, Phage tail tube protein	NA|125aa|up_4|NZ_CP048019.1_1556938_1557313_+	pfam06896, Phage_TAC_3, Phage tail assembly chaperone proteins, TAC	NA|62aa|up_3|NZ_CP048019.1_1557357_1557543_+	NA	NA|1485aa|up_2|NZ_CP048019.1_1557573_1562028_+	cd13402, LT_TF-like, lytic transglycosylase-like domain of tail fiber-like proteins and similar domains	NA|590aa|up_1|NZ_CP048019.1_1562104_1563874_+	pfam05709, Sipho_tail, Phage tail protein	NA|795aa|up_0|NZ_CP048019.1_1563937_1566322_+	TIGR01665, structural_protein, phage minor structural protein, N-terminal region	NA|80aa|down_0|NZ_CP048019.1_1568682_1568922_+	NA	NA|120aa|down_1|NZ_CP048019.1_1569070_1569430_+	NA	NA|395aa|down_2|NZ_CP048019.1_1569441_1570626_+	cd06415, GH25_Cpl1-like, Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain, thus acting as an enzymatic antimicrobial agent (an enzybiotic) against streptococcal infections	NA|88aa|down_3|NZ_CP048019.1_1570625_1570889_+	pfam10779, XhlA, Haemolysin XhlA	NA|122aa|down_4|NZ_CP048019.1_1570904_1571270_+	pfam04531, Phage_holin_1, Bacteriophage holin	NA|261aa|down_5|NZ_CP048019.1_1571730_1572513_+	PRK05716, PRK05716, methionine aminopeptidase; Validated	NA|370aa|down_6|NZ_CP048019.1_1573762_1574872_+	cd04737, LOX_like_FMN, L-Lactate oxidase (LOX) FMN-binding domain	NA|213aa|down_7|NZ_CP048019.1_1575275_1575914_+	cd03124, alpha_CA_prokaryotic_like, Carbonic anhydrase alpha, prokaryotic-like subfamily	NA|141aa|down_8|NZ_CP048019.1_1576596_1577019_-	NA	NA|89aa|down_9|NZ_CP048019.1_1577478_1577745_-	NA
