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
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	1	288435-288541	1	CRISPRCasFinder	no		cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Orphan	GCGCCTTATCCGGCCTACAGGCGAAGCGC	29	0	0	NA	NA	NA	1	1	Orphan	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA,NA|63aa|down_0|CP026238.1_288577_288766_+,NA|65aa|down_1|CP026238.1_288800_288995_-,NA|68aa|down_3|CP026238.1_290751_290955_-	NA|313aa|up_9|CP026238.1_276724_277663_-	cd01166, KdgK, 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP)	NA|250aa|up_8|CP026238.1_277666_278416_-	pfam01261, AP_endonuc_2, Xylose isomerase-like TIM barrel	NA|339aa|up_7|CP026238.1_278515_279532_-	cd06283, PBP1_RegR_EndR_KdgR-like, ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR	NA|221aa|up_6|CP026238.1_279636_280299_-	PRK10510, PRK10510, OmpA family lipoprotein	NA|778aa|up_5|CP026238.1_280458_282792_+	TIGR00509, Trimethylamine-N-oxide_reductase_1, molybdopterin guanine dinucleotide-containing S/N-oxide reductases	NA|147aa|up_4|CP026238.1_282760_283201_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	NA|190aa|up_3|CP026238.1_283190_283760_-	PRK10353, PRK10353, DNA-3-methyladenine glycosylase I	NA|234aa|up_2|CP026238.1_283918_284620_+	COG5571, COG5571, Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]	NA|401aa|up_1|CP026238.1_284871_286074_+	TIGR00890, Uncharacterized_MFS-type_transporter_YhjX, oxalate/formate antiporter family transporter	NA|565aa|up_0|CP026238.1_286284_287979_+	PRK11560, PRK11560, kdo(2)-lipid A phosphoethanolamine 7''-transferase	NA|63aa|down_0|CP026238.1_288577_288766_+	NA	NA|65aa|down_1|CP026238.1_288800_288995_-	NA	NA|536aa|down_2|CP026238.1_289143_290751_+	cd08493, PBP2_DppA_like, The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold	NA|68aa|down_3|CP026238.1_290751_290955_-	NA	NA|340aa|down_4|CP026238.1_290917_291937_+	PRK10914, PRK10914, dipeptide ABC transporter permease DppB	NA|301aa|down_5|CP026238.1_291946_292849_+	PRK10913, PRK10913, dipeptide ABC transporter permease DppC	NA|328aa|down_6|CP026238.1_292859_293843_+	PRK11022, dppD, dipeptide transporter ATP-binding subunit; Provisional	NA|335aa|down_7|CP026238.1_293839_294844_+	PRK11308, dppF, dipeptide transporter ATP-binding subunit; Provisional	NA|401aa|down_8|CP026238.1_295020_296223_+	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|433aa|down_9|CP026238.1_296258_297557_-	TIGR00814, membrane_transport_protein_YhjV, serine transporter
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	2	1074431-1074538	2	CRISPRCasFinder	no		cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Orphan	TGCCCGATGCGCGACGCTTATCGGGCCTACGGTAAACAG	39	0	0	NA	NA	NA	1	1	Orphan	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA,NA|98aa|down_4|CP026238.1_1081991_1082285_-,NA|116aa|down_9|CP026238.1_1086641_1086989_+	NA|455aa|up_9|CP026238.1_1063611_1064976_-	pfam11892, DUF3412, Domain of unknown function (DUF3412)	NA|283aa|up_8|CP026238.1_1065089_1065938_-	PRK11792, queF, 7-cyano-7-deazaguanine reductase; Provisional	NA|182aa|up_7|CP026238.1_1066006_1066552_+	PRK04968, PRK04968, SecY interacting protein Syd; Provisional	NA|110aa|up_6|CP026238.1_1067183_1067513_+	COG3098, COG3098, Uncharacterized protein conserved in bacteria [Function unknown]	NA|261aa|up_5|CP026238.1_1067512_1068295_+	PRK11112, PRK11112, tRNA pseudouridine synthase C; Provisional	NA|150aa|up_4|CP026238.1_1068314_1068764_+	PRK08105, PRK08105, flavodoxin; Provisional	NA|451aa|up_3|CP026238.1_1069107_1070460_+	TIGR00893, Probable_glucarate_transporter, D-galactonate transporter	NA|447aa|up_2|CP026238.1_1070462_1071803_+	TIGR03247, glucar-dehydr, glucarate dehydratase	NA|447aa|up_1|CP026238.1_1071823_1073164_+	TIGR03247, glucar-dehydr, glucarate dehydratase	NA|381aa|up_0|CP026238.1_1073246_1074389_+	pfam02595, Gly_kinase, Glycerate kinase family	NA|919aa|down_0|CP026238.1_1074585_1077342_-	PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional	NA|433aa|down_1|CP026238.1_1077399_1078698_+	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|745aa|down_2|CP026238.1_1078798_1081033_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|264aa|down_3|CP026238.1_1081163_1081955_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|98aa|down_4|CP026238.1_1081991_1082285_-	NA	NA|546aa|down_5|CP026238.1_1082305_1083943_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|down_6|CP026238.1_1084030_1085329_+	PRK00077, eno, enolase; Provisional	NA|105aa|down_7|CP026238.1_1085524_1085839_+	cd16159, ES, Estrone sulfatase	NA|262aa|down_8|CP026238.1_1085851_1086637_+	pfam13988, DUF4225, Protein of unknown function (DUF4225)	NA|116aa|down_9|CP026238.1_1086641_1086989_+	NA
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	3	1105468-1106594	1,3,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	17,18,18	18	TypeI-E	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA|61aa|up_9|CP026238.1_1095535_1095718_-,NA	NA|61aa|up_9|CP026238.1_1095535_1095718_-	NA	NA|245aa|up_8|CP026238.1_1095662_1096397_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	cas3|900aa|up_7|CP026238.1_1096441_1099141_-	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	cas8e|512aa|up_6|CP026238.1_1099496_1101032_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|201aa|up_5|CP026238.1_1101047_1101650_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|353aa|up_4|CP026238.1_1101672_1102731_+	pfam09344, Cas_CT1975, CT1975-like protein	cas5|242aa|up_3|CP026238.1_1102740_1103466_+	cd09756, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|235aa|up_2|CP026238.1_1103465_1104170_+	cd09664, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e	cas1|306aa|up_1|CP026238.1_1104169_1105087_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|CP026238.1_1105089_1105383_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|CP026238.1_1106685_1107732_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|344aa|down_1|CP026238.1_1107873_1108905_+	pfam13358, DDE_3, DDE superfamily endonuclease	NA|303aa|down_2|CP026238.1_1109141_1110050_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|476aa|down_3|CP026238.1_1110059_1111487_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_4|CP026238.1_1111486_1112092_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_5|CP026238.1_1112139_1112463_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_6|CP026238.1_1112677_1112989_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|232aa|down_7|CP026238.1_1113007_1113703_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_8|CP026238.1_1113757_1114237_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_9|CP026238.1_1114233_1115283_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	4	1499921-1500049	4	CRISPRCasFinder	no		cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Orphan	GCGACGTAGCGTCTTATCCGGCCTACGGGTTATGTACCTTGTAGG	45	0	0	NA	NA	NA	1	1	Orphan	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA|114aa|up_9|CP026238.1_1491750_1492092_-,NA|68aa|up_4|CP026238.1_1496393_1496597_-,NA|218aa|down_4|CP026238.1_1506509_1507163_-	NA|114aa|up_9|CP026238.1_1491750_1492092_-	NA	NA|93aa|up_8|CP026238.1_1492120_1492399_-	cd16363, Col_Im_like, inhibitory immunity (Im) protein of colicin (Col) deoxyribonuclease (DNase) and pyocins	NA|95aa|up_7|CP026238.1_1492433_1492718_-	pfam01320, Colicin_Pyocin, Colicin immunity protein / pyocin immunity protein	NA|580aa|up_6|CP026238.1_1492704_1494444_-	pfam06958, Pyocin_S, S-type Pyocin	NA|428aa|up_5|CP026238.1_1494672_1495956_-	PRK05614, gltA, citrate synthase	NA|68aa|up_4|CP026238.1_1496393_1496597_-	NA	NA|130aa|up_3|CP026238.1_1496668_1497058_+	PRK09487, sdhC, succinate dehydrogenase cytochrome b556 subunit	NA|116aa|up_2|CP026238.1_1497051_1497399_+	PRK09488, sdhD, succinate dehydrogenase membrane anchor subunit	NA|589aa|up_1|CP026238.1_1497398_1499165_+	PRK08958, sdhA, succinate dehydrogenase flavoprotein subunit; Reviewed	NA|239aa|up_0|CP026238.1_1499180_1499897_+	PRK05950, sdhB, succinate dehydrogenase iron-sulfur subunit; Reviewed	NA|934aa|down_0|CP026238.1_1500246_1503048_+	PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component; Reviewed	NA|408aa|down_1|CP026238.1_1503062_1504286_+	PRK05704, PRK05704, 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase	NA|389aa|down_2|CP026238.1_1504376_1505543_+	PRK00696, sucC, ADP-forming succinate--CoA ligase subunit beta	NA|290aa|down_3|CP026238.1_1505542_1506412_+	PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha; Validated	NA|218aa|down_4|CP026238.1_1506509_1507163_-	NA	NA|140aa|down_5|CP026238.1_1507159_1507579_-	pfam03928, Haem_degrading, Haem-degrading	NA|449aa|down_6|CP026238.1_1507584_1508931_-	COG0385, COG0385, Predicted Na+-dependent transporter [General function prediction only]	NA|271aa|down_7|CP026238.1_1508952_1509765_-	pfam05853, BKACE, beta-keto acid cleavage enzyme	NA|259aa|down_8|CP026238.1_1509793_1510570_-	COG3622, Hfi, Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]	NA|269aa|down_9|CP026238.1_1510550_1511357_-	COG1349, GlpR, Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	6	2211402-2211525	6	CRISPRCasFinder	no		cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Orphan	CGACCCCCACCATGTCAAGGTGGTGCTCTAACCAACTGAGCTA	43	0	0	NA	NA	NA	1	1	Orphan	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA,NA|114aa|down_4|CP026238.1_2214671_2215013_+	NA|631aa|up_9|CP026238.1_2198167_2200060_+	pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain	NA|403aa|up_8|CP026238.1_2200063_2201272_+	pfam13442, Cytochrome_CBB3, Cytochrome C oxidase, cbb3-type, subunit III	NA|492aa|up_7|CP026238.1_2201315_2202791_-	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]	NA|421aa|up_6|CP026238.1_2202897_2204160_+	PRK09792, PRK09792, 4-aminobutyrate transaminase; Provisional	NA|711aa|up_5|CP026238.1_2204373_2206506_+	TIGR01783, Ferrienterobactin_receptor, TonB-dependent siderophore receptor	NA|337aa|up_4|CP026238.1_2206515_2207526_+	cd01142, TroA_e, Periplasmic binding protein TroA_e	NA|352aa|up_3|CP026238.1_2207683_2208739_+	cd01142, TroA_e, Periplasmic binding protein TroA_e	NA|335aa|up_2|CP026238.1_2208725_2209730_+	pfam01032, FecCD, FecCD transport family	NA|251aa|up_1|CP026238.1_2209726_2210479_+	COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]	NA|241aa|up_0|CP026238.1_2210465_2211188_-	cd13541, PBP2_ModA_like_2, Substrate binding domain of molybdate-binding proteins;the type 2 periplasmic binding protein fold	NA|161aa|down_0|CP026238.1_2211731_2212214_-	cd00340, GSH_Peroxidase, Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate	NA|183aa|down_1|CP026238.1_2212382_2212931_-	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain	NA|111aa|down_2|CP026238.1_2212964_2213297_-	PRK09541, emrE, EmrE family multidrug efflux SMR transporter	NA|197aa|down_3|CP026238.1_2213854_2214445_+	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|114aa|down_4|CP026238.1_2214671_2215013_+	NA	NA|307aa|down_5|CP026238.1_2215403_2216324_-	cd08426, PBP2_LTTR_like_5, The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	NA|381aa|down_6|CP026238.1_2216438_2217581_+	cd03885, M20_CPDG2, M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme	NA|461aa|down_7|CP026238.1_2217695_2219078_+	COG3069, DcuC, C4-dicarboxylate transporter [Energy production and conversion]	NA|348aa|down_8|CP026238.1_2220968_2222012_+	cd16408, ParB_N_like, ParB N-terminal, parA -binding, -like domain of bacterial and plasmid parABS partitioning systems	NA|335aa|down_9|CP026238.1_2222121_2223126_-	PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed
GCA_002903305.1_ASM290330v1	CP026238	Citrobacter freundii complex sp. CFNIH9 chromosome, complete genome	7	4691902-4691975	7	CRISPRCasFinder	no		cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT	Orphan	TGCGCTACGCTTATCAGGCCTACG	24	0	0	NA	NA	NA	1	1	Orphan	cas3,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DinG,DEDDh,csa3,RT,PD-DExK	NA|36aa|up_6|CP026238.1_4685566_4685674_-,NA|276aa|down_4|CP026238.1_4698564_4699392_-	NA|101aa|up_9|CP026238.1_4682443_4682746_-	pfam05015, HigB-like_toxin, RelE-like toxin of type II toxin-antitoxin system HigB	NA|110aa|up_8|CP026238.1_4682901_4683231_-	PRK12704, PRK12704, phosphodiesterase; Provisional	NA|755aa|up_7|CP026238.1_4683300_4685565_-	PRK13557, PRK13557, histidine kinase; Provisional	NA|36aa|up_6|CP026238.1_4685566_4685674_-	NA	NA|508aa|up_5|CP026238.1_4685679_4687203_+	COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]	NA|332aa|up_4|CP026238.1_4687195_4688191_+	COG4158, COG4158, Predicted ABC-type sugar transport system, permease component [General function prediction only]	NA|314aa|up_3|CP026238.1_4688279_4689221_+	cd06321, PBP1_ABC_sugar_binding-like, periplasmic sugar-binding domain of uncharacterized ABC-type transport systems	NA|228aa|up_2|CP026238.1_4689341_4690025_+	pfam07385, Lyx_isomer, D-lyxose isomerase	NA|287aa|up_1|CP026238.1_4690039_4690900_+	PRK06801, PRK06801, ketose 1,6-bisphosphate aldolase	NA|335aa|up_0|CP026238.1_4690896_4691901_+	COG0524, RbsK, Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]	NA|327aa|down_0|CP026238.1_4692101_4693082_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|244aa|down_1|CP026238.1_4693319_4694051_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|716aa|down_2|CP026238.1_4694339_4696487_+	TIGR01591, Formate_dehydrogenase_subunit_alpha, formate dehydrogenase, alpha subunit, archaeal-type	NA|228aa|down_3|CP026238.1_4696578_4697262_+	COG0790, COG0790, FOG: TPR repeat, SEL1 subfamily [General function prediction only]	NA|276aa|down_4|CP026238.1_4698564_4699392_-	NA	NA|438aa|down_5|CP026238.1_4704200_4705514_-	PRK11283, gltP, glutamate/aspartate:proton symporter; Provisional	NA|204aa|down_6|CP026238.1_4705858_4706470_-	PRK10370, PRK10370, formate-dependent nitrite reductase complex subunit NrfG; Provisional	NA|127aa|down_7|CP026238.1_4706466_4706847_-	PRK10144, PRK10144, formate-dependent nitrite reductase complex subunit NrfF; Provisional	NA|331aa|down_8|CP026238.1_4707553_4708546_-	COG3547, COG3547, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|319aa|down_9|CP026238.1_4710019_4710976_-	TIGR03148, cyt_nit_nrfD, cytochrome c nitrite reductase, NrfD subunit
