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_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	1	619975-620076	1	CRISPRCasFinder	no		cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Orphan	TTGTTGATGTTGTTGTGTTTTGTA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA,NA|55aa|down_0|NZ_CP053259.1_620116_620281_-	NA|115aa|up_9|NZ_CP053259.1_607647_607992_-	PRK11424, PRK11424, DNA-binding transcriptional activator TdcR; Provisional	NA|307aa|up_8|NZ_CP053259.1_608180_609101_+	PRK10341, PRK10341, transcriptional regulator TdcA	NA|330aa|up_7|NZ_CP053259.1_609217_610207_+	PRK08638, PRK08638, bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB	NA|444aa|up_6|NZ_CP053259.1_610228_611560_+	PRK13629, PRK13629, threonine/serine transporter TdcC; Provisional	NA|403aa|up_5|NZ_CP053259.1_611585_612794_+	PRK12379, PRK12379, propionate kinase	NA|765aa|up_4|NZ_CP053259.1_612827_615122_+	cd01678, PFL1, Pyruvate formate lyase 1	NA|130aa|up_3|NZ_CP053259.1_615135_615525_+	PRK11401, PRK11401, enamine/imine deaminase	NA|455aa|up_2|NZ_CP053259.1_615596_616961_+	PRK15040, PRK15040, L-serine ammonia-lyase	NA|444aa|up_1|NZ_CP053259.1_617235_618567_+	TIGR00814, membrane_transport_protein_YhjV, serine transporter	NA|437aa|up_0|NZ_CP053259.1_618594_619905_+	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|55aa|down_0|NZ_CP053259.1_620116_620281_-	NA	NA|234aa|down_1|NZ_CP053259.1_620303_621005_-	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|299aa|down_2|NZ_CP053259.1_621109_622006_+	cd08431, PBP2_HupR, The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold	NA|119aa|down_3|NZ_CP053259.1_622056_622413_-	COG3152, COG3152, Predicted membrane protein [Function unknown]	NA|122aa|down_4|NZ_CP053259.1_622654_623020_-	COG3152, COG3152, Predicted membrane protein [Function unknown]	NA|329aa|down_5|NZ_CP053259.1_623302_624289_-	COG0435, ECM4, Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]	NA|161aa|down_6|NZ_CP053259.1_624358_624841_-	COG2259, COG2259, Predicted membrane protein [Function unknown]	NA|100aa|down_7|NZ_CP053259.1_624936_625236_-	pfam13997, YqjK, YqjK-like protein	NA|135aa|down_8|NZ_CP053259.1_625225_625630_-	COG5393, COG5393, Predicted membrane protein [Function unknown]	NA|102aa|down_9|NZ_CP053259.1_625632_625938_-	COG4575, ElaB, Uncharacterized conserved protein [Function unknown]
GCF_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	2	1028699-1029338	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	9,10,10	10	TypeI-E	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA,NA	NA|245aa|up_9|NZ_CP053259.1_1018700_1019435_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|51aa|up_8|NZ_CP053259.1_1019699_1019852_+	pfam01848, HOK_GEF, Hok/gef family	cas3|900aa|up_7|NZ_CP053259.1_1020044_1022744_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|521aa|up_6|NZ_CP053259.1_1022840_1024403_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|179aa|up_5|NZ_CP053259.1_1024399_1024936_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|352aa|up_4|NZ_CP053259.1_1024947_1026003_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP053259.1_1026013_1026760_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP053259.1_1026741_1027392_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|308aa|up_1|NZ_CP053259.1_1027388_1028312_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP053259.1_1028308_1028602_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|346aa|down_0|NZ_CP053259.1_1029419_1030457_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP053259.1_1030708_1031617_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|476aa|down_2|NZ_CP053259.1_1031618_1033046_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP053259.1_1033045_1033651_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP053259.1_1033700_1034024_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP053259.1_1034217_1034529_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP053259.1_1034547_1035258_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP053259.1_1035257_1035737_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP053259.1_1035733_1036783_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP053259.1_1036763_1037525_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	3	2117291-2117414	3	CRISPRCasFinder	no	DEDDh	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Unclear	CGACCCCCACCATGTCAAGGTGGTGCTCTAACCAACTGAGCTA	43	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA,NA|30aa|down_7|NZ_CP053259.1_2126310_2126400_+	NA|471aa|up_9|NZ_CP053259.1_2106744_2108157_-	PRK09206, PRK09206, pyruvate kinase PykF	NA|70aa|up_8|NZ_CP053259.1_2108713_2108923_+	PRK10292, PRK10292, fumarate hydratase FumD	NA|209aa|up_7|NZ_CP053259.1_2109378_2110005_+	PRK09898, PRK09898, ferredoxin-like protein	NA|701aa|up_6|NZ_CP053259.1_2110025_2112128_+	PRK09849, PRK09849, putative oxidoreductase; Provisional	NA|213aa|up_5|NZ_CP053259.1_2112140_2112779_+	PRK09947, PRK09947, YdhW family putative oxidoreductase system protein	NA|223aa|up_4|NZ_CP053259.1_2112842_2113511_+	TIGR03149, cyt_nit_nrfC, cytochrome c nitrite reductase, Fe-S protein	NA|262aa|up_3|NZ_CP053259.1_2113507_2114293_+	PRK15006, PRK15006, thiosulfate reductase cytochrome B subunit; Provisional	NA|271aa|up_2|NZ_CP053259.1_2114296_2115109_+	PRK09946, PRK09946, hypothetical protein; Provisional	NA|535aa|up_1|NZ_CP053259.1_2115120_2116725_-	PRK09897, PRK09897, FAD-NAD(P)-binding protein	NA|102aa|up_0|NZ_CP053259.1_2116850_2117156_-	PRK11118, PRK11118, putative monooxygenase; Provisional	NA|419aa|down_0|NZ_CP053259.1_2117728_2118985_+	PRK09945, PRK09945, hypothetical protein; Provisional	NA|458aa|down_1|NZ_CP053259.1_2119025_2120399_-	PRK01766, PRK01766, multidrug efflux protein; Reviewed	NA|214aa|down_2|NZ_CP053259.1_2120613_2121255_+	PRK13020, PRK13020, riboflavin synthase subunit alpha; Provisional	NA|383aa|down_3|NZ_CP053259.1_2121294_2122443_-	PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase	NA|404aa|down_4|NZ_CP053259.1_2122733_2123945_-	PRK11043, PRK11043, Bcr/CflA family multidrug efflux MFS transporter	NA|311aa|down_5|NZ_CP053259.1_2124057_2124990_+	PRK11074, PRK11074, putative DNA-binding transcriptional regulator; Provisional	NA|342aa|down_6|NZ_CP053259.1_2124986_2126012_-	PRK10703, PRK10703, HTH-type transcriptional repressor PurR	NA|30aa|down_7|NZ_CP053259.1_2126310_2126400_+	NA	NA|390aa|down_8|NZ_CP053259.1_2126565_2127735_+	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|194aa|down_9|NZ_CP053259.1_2127880_2128462_-	PRK10543, PRK10543, superoxide dismutase [Fe]
GCF_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	4	2828494-2828585	4	CRISPRCasFinder	no		cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Orphan	CCACCTTTTTTACCTGCTTCAGATGC	26	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA|70aa|up_9|NZ_CP053259.1_2817569_2817779_-,NA	NA|70aa|up_9|NZ_CP053259.1_2817569_2817779_-	NA	NA|1321aa|up_8|NZ_CP053259.1_2817833_2821796_+	PRK11809, putA, trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed	NA|213aa|up_7|NZ_CP053259.1_2821835_2822474_-	PRK15008, PRK15008, HTH-type transcriptional regulator RutR; Provisional	NA|364aa|up_6|NZ_CP053259.1_2822761_2823853_+	TIGR03612, RutA, pyrimidine utilization protein A	NA|231aa|up_5|NZ_CP053259.1_2823852_2824545_+	TIGR03614, RutB, pyrimidine utilization protein B	NA|129aa|up_4|NZ_CP053259.1_2824556_2824943_+	TIGR03610, RutC, pyrimidine utilization protein C	NA|267aa|up_3|NZ_CP053259.1_2824950_2825751_+	TIGR03611, RutD, pyrimidine utilization protein D	NA|197aa|up_2|NZ_CP053259.1_2825760_2826351_+	PRK05365, PRK05365, malonic semialdehyde reductase; Provisional	NA|165aa|up_1|NZ_CP053259.1_2826361_2826856_+	TIGR03615, flavoprotein_oxidoreductase, pyrimidine utilization flavin reductase protein F	NA|443aa|up_0|NZ_CP053259.1_2826876_2828205_+	TIGR03616, Putative_pyrimidine_permease_RutG, pyrimidine utilization transport protein G	NA|199aa|down_0|NZ_CP053259.1_2829008_2829605_+	PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional	NA|76aa|down_1|NZ_CP053259.1_2829625_2829853_+	PRK10174, PRK10174, hypothetical protein; Provisional	NA|414aa|down_2|NZ_CP053259.1_2829890_2831132_-	PRK10173, PRK10173, glucose-1-phosphatase/inositol phosphatase; Provisional	NA|417aa|down_3|NZ_CP053259.1_2831424_2832675_-	PRK09784, PRK09784, YccE family protein	NA|307aa|down_4|NZ_CP053259.1_2832934_2833855_+	PRK10266, PRK10266, curved DNA-binding protein	NA|102aa|down_5|NZ_CP053259.1_2833854_2834160_+	PRK10265, PRK10265, chaperone modulator CbpM	NA|200aa|down_6|NZ_CP053259.1_2834252_2834852_-	PRK04976, torD, chaperone protein TorD; Validated	NA|849aa|down_7|NZ_CP053259.1_2834848_2837395_-	PRK15102, PRK15102, trimethylamine-N-oxide reductase TorA	NA|391aa|down_8|NZ_CP053259.1_2837394_2838567_-	PRK15032, PRK15032, pentaheme c-type cytochrome TorC	NA|231aa|down_9|NZ_CP053259.1_2838696_2839389_+	PRK10766, PRK10766, two-component system response regulator TorR
GCF_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	5	3553316-3553458	5	CRISPRCasFinder	no		cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Orphan	GCACGACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACA	43	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA,NA	NA|321aa|up_9|NZ_CP053259.1_3541745_3542708_-	PRK11480, tauA, taurine transporter substrate binding subunit; Provisional	NA|210aa|up_8|NZ_CP053259.1_3543010_3543640_+	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|514aa|up_7|NZ_CP053259.1_3543639_3545181_+	COG3851, UhpB, Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]	NA|439aa|up_6|NZ_CP053259.1_3545253_3546570_+	cd17488, MFS_UhpC, Membrane sensor protein UhpC of the Major Facilitator Superfamily of transporters	NA|344aa|up_5|NZ_CP053259.1_3546566_3547598_+	cd13544, PBP2_Fbp_like_1, Substrate binding domain of a putative ferric iron transporter, a member of the type 2 periplasmic binding fold superfamily	NA|693aa|up_4|NZ_CP053259.1_3547666_3549745_+	COG1178, ThiP, ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]	NA|349aa|up_3|NZ_CP053259.1_3549756_3550803_+	PRK11432, fbpC, ferric ABC transporter ATP-binding protein	NA|92aa|up_2|NZ_CP053259.1_3550962_3551238_+	PRK11352, PRK11352, formaldehyde-responsive transcriptional repressor FrmR	NA|370aa|up_1|NZ_CP053259.1_3551272_3552382_+	cd08300, alcohol_DH_class_III, class III alcohol dehydrogenases	NA|278aa|up_0|NZ_CP053259.1_3552474_3553308_+	TIGR02821, S-formylglutathione_hydrolase, S-formylglutathione hydrolase	NA|180aa|down_0|NZ_CP053259.1_3553532_3554072_-	COG3122, COG3122, Uncharacterized protein conserved in bacteria [Function unknown]	NA|404aa|down_1|NZ_CP053259.1_3554173_3555385_-	PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter MhpT; Provisional	NA|338aa|down_2|NZ_CP053259.1_3555560_3556574_-	PRK08195, PRK08195, 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated	NA|317aa|down_3|NZ_CP053259.1_3556570_3557521_-	PRK08300, PRK08300, acetaldehyde dehydrogenase; Validated	NA|270aa|down_4|NZ_CP053259.1_3557517_3558327_-	PRK11342, mhpD, 2-keto-4-pentenoate hydratase; Provisional	NA|289aa|down_5|NZ_CP053259.1_3558336_3559203_-	TIGR03343, 2-hydroxy-6-oxo-6-phenylhexa-24-dienoate_hydrolase, 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase	NA|315aa|down_6|NZ_CP053259.1_3559220_3560165_-	cd07365, MhpB_like, Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate	NA|555aa|down_7|NZ_CP053259.1_3560166_3561831_-	PRK06183, mhpA, bifunctional 3-(3-hydroxy-phenyl)propionate/3-hydroxycinnamic acid hydroxylase	NA|316aa|down_8|NZ_CP053259.1_3561907_3562855_+	PRK09834, PRK09834, DNA-binding transcriptional regulator	NA|361aa|down_9|NZ_CP053259.1_3562931_3564014_+	PRK09526, lacI, lac repressor; Reviewed
GCF_013112335.1_ASM1311233v1	NZ_CP053259	Escherichia coli strain GF3-3 chromosome, complete genome	6	4093963-4094112	6	CRISPRCasFinder	no		cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	Orphan	TGAACGCCTTATCCGACCTACACAGCACTGAACTCGTAGGCCTGATAAGACGCG	54	0	0	NA	NA	NA	1	1	Orphan	cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4	NA,NA|603aa|down_6|NZ_CP053259.1_4101215_4103024_-	NA|340aa|up_9|NZ_CP053259.1_4082153_4083173_+	cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD)	NA|188aa|up_8|NZ_CP053259.1_4083176_4083740_-	PRK09825, idnK, gluconokinase	NA|344aa|up_7|NZ_CP053259.1_4083956_4084988_+	PRK09880, PRK09880, L-idonate 5-dehydrogenase; Provisional	NA|255aa|up_6|NZ_CP053259.1_4085011_4085776_+	PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional	NA|440aa|up_5|NZ_CP053259.1_4085840_4087160_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|333aa|up_4|NZ_CP053259.1_4087226_4088225_+	cd01575, PBP1_GntR, ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators	NA|501aa|up_3|NZ_CP053259.1_4088302_4089805_+	pfam05872, DUF853, Bacterial protein of unknown function (DUF853)	NA|361aa|up_2|NZ_CP053259.1_4089965_4091048_-	PRK15071, PRK15071, lipopolysaccharide ABC transporter permease; Provisional	NA|367aa|up_1|NZ_CP053259.1_4091047_4092148_-	PRK15120, PRK15120, lipopolysaccharide ABC transporter permease LptF; Provisional	NA|504aa|up_0|NZ_CP053259.1_4092414_4093926_+	PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional	NA|148aa|down_0|NZ_CP053259.1_4094279_4094723_+	PRK05728, PRK05728, DNA polymerase III subunit chi; Validated	NA|952aa|down_1|NZ_CP053259.1_4094722_4097578_+	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|399aa|down_2|NZ_CP053259.1_4097633_4098830_-	COG4269, COG4269, Predicted membrane protein [Function unknown]	NA|168aa|down_3|NZ_CP053259.1_4099022_4099526_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|139aa|down_4|NZ_CP053259.1_4099571_4099988_-	PRK11191, PRK11191, ribonuclease E inhibitor RraB	NA|338aa|down_5|NZ_CP053259.1_4100149_4101163_+	PRK03515, PRK03515, ornithine carbamoyltransferase subunit I; Provisional	NA|603aa|down_6|NZ_CP053259.1_4101215_4103024_-	NA	NA|151aa|down_7|NZ_CP053259.1_4103146_4103599_-	COG2731, EbgC, Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]	NA|198aa|down_8|NZ_CP053259.1_4103743_4104337_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|238aa|down_9|NZ_CP053259.1_4104407_4105121_+	PRK12742, PRK12742, SDR family oxidoreductase
