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_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	1	456126-456399	1,1,1	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Unclear	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACACA,CGGTTTATCCCCGCTGGCGCGGGGAACACA	29,30,30	0	0	NA	NA	I-E:I-E:I-E	4,4,3	4	Unclear	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA,NA	NA|254aa|up_9|NZ_CP018323.1_447938_448700_-	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional	NA|350aa|up_8|NZ_CP018323.1_448680_449730_-	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|160aa|up_7|NZ_CP018323.1_449726_450206_-	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|237aa|up_6|NZ_CP018323.1_450205_450916_-	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|104aa|up_5|NZ_CP018323.1_450934_451246_-	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|108aa|up_4|NZ_CP018323.1_451439_451763_-	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|202aa|up_3|NZ_CP018323.1_451812_452418_-	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|476aa|up_2|NZ_CP018323.1_452417_453845_-	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|303aa|up_1|NZ_CP018323.1_453846_454755_-	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|346aa|up_0|NZ_CP018323.1_455006_456044_+	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	cas2|98aa|down_0|NZ_CP018323.1_456494_456788_-	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	cas1|216aa|down_1|NZ_CP018323.1_456784_457432_-	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	NA|51aa|down_2|NZ_CP018323.1_457625_457778_-	pfam01848, HOK_GEF, Hok/gef family	NA|245aa|down_3|NZ_CP018323.1_458042_458777_-	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|571aa|down_4|NZ_CP018323.1_458850_460563_-	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|600aa|down_5|NZ_CP018323.1_460562_462362_-	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|122aa|down_6|NZ_CP018323.1_462677_463043_+	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|424aa|down_7|NZ_CP018323.1_463120_464392_+	PRK10015, PRK10015, oxidoreductase; Provisional	NA|87aa|down_8|NZ_CP018323.1_464382_464643_+	COG2440, FixX, Ferredoxin-like protein [Energy production and conversion]	NA|192aa|down_9|NZ_CP018323.1_464659_465235_+	COG1954, GlpP, Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]
GCF_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	2	474476-475846	2,2,2	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Unclear	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAAC	29,29,27	0	0	NA	NA	I-E:I-E:I-E	22,22,22	22	Unclear	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA,NA|47aa|down_1|NZ_CP018323.1_476995_477136_+	NA|424aa|up_9|NZ_CP018323.1_463120_464392_+	PRK10015, PRK10015, oxidoreductase; Provisional	NA|87aa|up_8|NZ_CP018323.1_464382_464643_+	COG2440, FixX, Ferredoxin-like protein [Energy production and conversion]	NA|192aa|up_7|NZ_CP018323.1_464659_465235_+	COG1954, GlpP, Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]	NA|287aa|up_6|NZ_CP018323.1_465382_466243_-	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|260aa|up_5|NZ_CP018323.1_466239_467019_-	COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy production and conversion]	NA|446aa|up_4|NZ_CP018323.1_466996_468334_-	cd17371, MFS_MucK, Cis,cis-muconate transport protein and similar proteins of the Major Facilitator Superfamily	NA|485aa|up_3|NZ_CP018323.1_468427_469882_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|262aa|up_2|NZ_CP018323.1_469951_470737_-	cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs	NA|426aa|up_1|NZ_CP018323.1_471054_472332_+	cd06174, MFS, Major Facilitator Superfamily	NA|493aa|up_0|NZ_CP018323.1_472358_473837_+	cd07779, FGGY_ygcE_like, uncharacterized ygcE-like proteins	NA|224aa|down_0|NZ_CP018323.1_476185_476857_-	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|47aa|down_1|NZ_CP018323.1_476995_477136_+	NA	NA|291aa|down_2|NZ_CP018323.1_477149_478022_+	COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only]	NA|433aa|down_3|NZ_CP018323.1_478081_479380_-	PRK00077, eno, enolase; Provisional	NA|546aa|down_4|NZ_CP018323.1_479467_481105_-	PRK05380, pyrG, CTP synthetase; Validated	NA|264aa|down_5|NZ_CP018323.1_481332_482124_-	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|112aa|down_6|NZ_CP018323.1_482194_482530_-	PRK09907, PRK09907, endoribonuclease MazF	NA|83aa|down_7|NZ_CP018323.1_482529_482778_-	PRK09798, PRK09798, MazF-MazE toxin-antitoxin system antitoxin MazE	NA|745aa|down_8|NZ_CP018323.1_482855_485090_-	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|434aa|down_9|NZ_CP018323.1_485137_486439_-	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
GCF_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	3	2373527-2373658	3	PILER-CR	no		cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Orphan	TTTTCAATATTGGTGAT	17	0	0	NA	NA	NA	2	2	Orphan	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA,NA	NA|274aa|up_9|NZ_CP018323.1_2359718_2360540_+	COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]	NA|383aa|up_8|NZ_CP018323.1_2360995_2362144_+	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|1074aa|up_7|NZ_CP018323.1_2362161_2365383_+	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|132aa|up_6|NZ_CP018323.1_2365643_2366039_+	PRK11476, PRK11476, carnitine metabolism transcriptional regulator CaiF	NA|197aa|up_5|NZ_CP018323.1_2366124_2366715_-	PRK13627, PRK13627, carnitine operon protein CaiE; Provisional	NA|262aa|up_4|NZ_CP018323.1_2366720_2367506_-	PRK03580, PRK03580, crotonobetainyl-CoA hydratase	NA|518aa|up_3|NZ_CP018323.1_2367614_2369168_-	PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase; Validated	NA|406aa|up_2|NZ_CP018323.1_2369241_2370459_-	PRK03525, PRK03525, L-carnitine CoA-transferase	NA|381aa|up_1|NZ_CP018323.1_2370587_2371730_-	PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated	NA|505aa|up_0|NZ_CP018323.1_2371760_2373275_-	PRK03356, PRK03356, L-carnitine/gamma-butyrobetaine antiport BCCT transporter	NA|257aa|down_0|NZ_CP018323.1_2373748_2374519_+	PRK03359, PRK03359, putative electron transfer flavoprotein FixA; Reviewed	NA|314aa|down_1|NZ_CP018323.1_2374533_2375475_+	PRK03363, fixB, electron transfer flavoprotein subunit alpha/FixB family protein	NA|429aa|down_2|NZ_CP018323.1_2375525_2376812_+	PRK10157, PRK10157, putative oxidoreductase FixC; Provisional	NA|96aa|down_3|NZ_CP018323.1_2376808_2377096_+	PRK15449, PRK15449, ferredoxin-like protein FixX; Provisional	NA|444aa|down_4|NZ_CP018323.1_2377153_2378485_+	cd17316, MFS_SV2_like, Metazoan Synaptic vesicle glycoprotein 2 (SV2) and related small molecule transporters of the Major Facilitator Superfamily	NA|177aa|down_5|NZ_CP018323.1_2378592_2379123_+	PRK00871, PRK00871, glutathione-regulated potassium-efflux system oxidoreductase KefF	NA|621aa|down_6|NZ_CP018323.1_2379115_2380978_+	PRK03562, PRK03562, glutathione-regulated potassium-efflux system protein KefC; Provisional	NA|160aa|down_7|NZ_CP018323.1_2381169_2381649_+	PRK10769, folA, type 3 dihydrofolate reductase	NA|281aa|down_8|NZ_CP018323.1_2381726_2382569_-	TIGR00668, Bis5'-nucleosyl-tetraphosphatase_symmetrical, bis(5'-nucleosyl)-tetraphosphatase (symmetrical)	NA|126aa|down_9|NZ_CP018323.1_2382575_2382953_-	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed
GCF_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	4	2914882-2914978	3	CRISPRCasFinder	no		cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Orphan	GCTTGACGCGTCTTATCAGGCCTACAA	27	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA,NA	NA|454aa|up_9|NZ_CP018323.1_2902751_2904113_+	PRK08044, PRK08044, allantoinase AllB	NA|434aa|up_8|NZ_CP018323.1_2904169_2905471_+	PRK11412, PRK11412, uracil/xanthine transporter	NA|382aa|up_7|NZ_CP018323.1_2905492_2906638_+	PRK09932, PRK09932, glycerate 3-kinase	NA|262aa|up_6|NZ_CP018323.1_2906766_2907552_-	COG3257, GlxB, Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]	NA|412aa|up_5|NZ_CP018323.1_2907562_2908798_-	TIGR03176, AllC, allantoate amidohydrolase	NA|350aa|up_4|NZ_CP018323.1_2908819_2909869_-	PRK15025, PRK15025, ureidoglycolate dehydrogenase; Provisional	NA|556aa|up_3|NZ_CP018323.1_2910185_2911853_+	PRK06091, PRK06091, membrane protein FdrA; Validated	NA|420aa|up_2|NZ_CP018323.1_2911862_2913122_+	pfam06545, DUF1116, Protein of unknown function (DUF1116)	NA|272aa|up_1|NZ_CP018323.1_2913132_2913948_+	pfam11392, DUF2877, Protein of unknown function (DUF2877)	NA|298aa|up_0|NZ_CP018323.1_2913944_2914838_+	PRK09411, PRK09411, carbamate kinase; Reviewed	NA|356aa|down_0|NZ_CP018323.1_2915042_2916110_-	PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed	NA|170aa|down_1|NZ_CP018323.1_2916106_2916616_-	COG0041, PurE, Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]	NA|241aa|down_2|NZ_CP018323.1_2916733_2917456_-	PRK05340, PRK05340, UDP-2,3-diacylglucosamine hydrolase; Provisional	NA|165aa|down_3|NZ_CP018323.1_2917458_2917953_-	PRK10791, PRK10791, peptidylprolyl isomerase B	NA|462aa|down_4|NZ_CP018323.1_2918126_2919512_+	PRK00260, cysS, cysteinyl-tRNA synthetase; Validated	NA|174aa|down_5|NZ_CP018323.1_2919547_2920069_-	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|71aa|down_6|NZ_CP018323.1_2920176_2920389_-	PRK11507, PRK11507, ribosome-associated protein YbcJ	NA|289aa|down_7|NZ_CP018323.1_2920390_2921257_-	PRK10792, PRK10792, bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	NA|181aa|down_8|NZ_CP018323.1_2921737_2922280_+	PRK15194, PRK15194, type 1 fimbrial protein subunit FimA	NA|231aa|down_9|NZ_CP018323.1_2922499_2923192_+	PRK15195, PRK15195, molecular chaperone FimC
GCF_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	5	3432717-3432808	4	CRISPRCasFinder	no		cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Orphan	GCATCAGAAGCAGGTAAAAAAGGTGG	26	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA,NA|70aa|down_9|NZ_CP018323.1_3443347_3443557_+	NA|231aa|up_9|NZ_CP018323.1_3421907_3422600_-	PRK10766, PRK10766, two-component system response regulator TorR	NA|391aa|up_8|NZ_CP018323.1_3422729_3423902_+	PRK15032, PRK15032, pentaheme c-type cytochrome TorC	NA|849aa|up_7|NZ_CP018323.1_3423901_3426448_+	PRK15102, PRK15102, trimethylamine-N-oxide reductase TorA	NA|200aa|up_6|NZ_CP018323.1_3426444_3427044_+	PRK04976, torD, chaperone protein TorD; Validated	NA|102aa|up_5|NZ_CP018323.1_3427136_3427442_-	PRK10265, PRK10265, chaperone modulator CbpM	NA|307aa|up_4|NZ_CP018323.1_3427441_3428362_-	PRK10266, PRK10266, curved DNA-binding protein	NA|420aa|up_3|NZ_CP018323.1_3428621_3429881_+	PRK09784, PRK09784, YccE family protein	NA|414aa|up_2|NZ_CP018323.1_3430169_3431411_+	PRK10173, PRK10173, glucose-1-phosphatase/inositol phosphatase; Provisional	NA|76aa|up_1|NZ_CP018323.1_3431448_3431676_-	PRK10174, PRK10174, hypothetical protein; Provisional	NA|199aa|up_0|NZ_CP018323.1_3431696_3432293_-	PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional	NA|443aa|down_0|NZ_CP018323.1_3432921_3434250_-	TIGR03616, Putative_pyrimidine_permease_RutG, pyrimidine utilization transport protein G	NA|165aa|down_1|NZ_CP018323.1_3434270_3434765_-	TIGR03615, flavoprotein_oxidoreductase, pyrimidine utilization flavin reductase protein F	NA|197aa|down_2|NZ_CP018323.1_3434775_3435366_-	PRK05365, PRK05365, malonic semialdehyde reductase; Provisional	NA|267aa|down_3|NZ_CP018323.1_3435375_3436176_-	TIGR03611, RutD, pyrimidine utilization protein D	NA|129aa|down_4|NZ_CP018323.1_3436183_3436570_-	TIGR03610, RutC, pyrimidine utilization protein C	NA|231aa|down_5|NZ_CP018323.1_3436581_3437274_-	TIGR03614, RutB, pyrimidine utilization protein B	NA|364aa|down_6|NZ_CP018323.1_3437273_3438365_-	TIGR03612, RutA, pyrimidine utilization protein A	NA|213aa|down_7|NZ_CP018323.1_3438652_3439291_+	PRK15008, PRK15008, HTH-type transcriptional regulator RutR; Provisional	NA|1321aa|down_8|NZ_CP018323.1_3439330_3443293_-	PRK11809, putA, trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed	NA|70aa|down_9|NZ_CP018323.1_3443347_3443557_+	NA
GCF_002163655.1_ASM216365v1	NZ_CP018323	Escherichia coli strain KSC9 chromosome, complete genome	6	4297085-4297222	5	CRISPRCasFinder	no		cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	Orphan	CTTATTTTTCAATAAGTTGTAATCACCCATATATAGAGAACTG	43	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas2,cas1,PD-DExK,WYL,DEDDh,RT,DinG,c2c9_V-U4	NA|258aa|up_7|NZ_CP018323.1_4290006_4290780_-,NA|72aa|up_5|NZ_CP018323.1_4293180_4293396_-,NA|237aa|up_4|NZ_CP018323.1_4293421_4294132_-,NA|110aa|up_3|NZ_CP018323.1_4294661_4294991_-,NA|63aa|up_2|NZ_CP018323.1_4295366_4295555_-,NA|96aa|up_1|NZ_CP018323.1_4295596_4295884_-,NA|185aa|up_0|NZ_CP018323.1_4295885_4296440_-,NA|169aa|down_0|NZ_CP018323.1_4299042_4299549_-	NA|165aa|up_9|NZ_CP018323.1_4287920_4288415_+	PRK10302, PRK10302, hypothetical protein; Provisional	NA|508aa|up_8|NZ_CP018323.1_4288468_4289992_+	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain	NA|258aa|up_7|NZ_CP018323.1_4290006_4290780_-	NA	NA|709aa|up_6|NZ_CP018323.1_4290937_4293064_-	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|72aa|up_5|NZ_CP018323.1_4293180_4293396_-	NA	NA|237aa|up_4|NZ_CP018323.1_4293421_4294132_-	NA	NA|110aa|up_3|NZ_CP018323.1_4294661_4294991_-	NA	NA|63aa|up_2|NZ_CP018323.1_4295366_4295555_-	NA	NA|96aa|up_1|NZ_CP018323.1_4295596_4295884_-	NA	NA|185aa|up_0|NZ_CP018323.1_4295885_4296440_-	NA	NA|169aa|down_0|NZ_CP018323.1_4299042_4299549_-	NA	NA|117aa|down_1|NZ_CP018323.1_4299966_4300317_+	PRK10302, PRK10302, hypothetical protein; Provisional	NA|132aa|down_2|NZ_CP018323.1_4300369_4300765_+	COG3788, COG3788, Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]	NA|248aa|down_3|NZ_CP018323.1_4300805_4301549_+	PRK15451, PRK15451, carboxy-S-adenosyl-L-methionine synthase CmoA	NA|324aa|down_4|NZ_CP018323.1_4301545_4302517_+	PRK15068, PRK15068, tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB	NA|327aa|down_5|NZ_CP018323.1_4302710_4303691_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|810aa|down_6|NZ_CP018323.1_4303960_4306390_-	TIGR00509, Trimethylamine-N-oxide_reductase_1, molybdopterin guanine dinucleotide-containing S/N-oxide reductases	NA|367aa|down_7|NZ_CP018323.1_4306414_4307515_-	pfam03264, Cytochrom_NNT, NapC/NirT cytochrome c family, N-terminal region	NA|249aa|down_8|NZ_CP018323.1_4307901_4308648_-	PRK11572, PRK11572, copper homeostasis protein CutC; Provisional	NA|189aa|down_9|NZ_CP018323.1_4308661_4309228_-	PRK11700, PRK11700, VOC family protein
