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_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	1	114241-114385	1	CRISPRCasFinder	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	GTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACAATAAGTGCCGGATGC	52	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|94aa|up_6|NZ_CP031134.1_109626_109908_+,NA|201aa|up_4|NZ_CP031134.1_110438_111041_-,NA|56aa|up_3|NZ_CP031134.1_111283_111451_+,NA	NA|227aa|up_9|NZ_CP031134.1_108592_109273_+	pfam09588, YqaJ, YqaJ-like viral recombinase domain	NA|61aa|up_8|NZ_CP031134.1_109269_109452_+	pfam07026, DUF1317, Protein of unknown function (DUF1317)	NA|64aa|up_7|NZ_CP031134.1_109424_109616_+	pfam07131, DUF1382, Protein of unknown function (DUF1382)	NA|94aa|up_6|NZ_CP031134.1_109626_109908_+	NA	NA|74aa|up_5|NZ_CP031134.1_110006_110228_+	PHA00080, PHA00080, DksA-like zinc finger domain containing protein	NA|201aa|up_4|NZ_CP031134.1_110438_111041_-	NA	NA|56aa|up_3|NZ_CP031134.1_111283_111451_+	NA	NA|73aa|up_2|NZ_CP031134.1_111490_111709_+	pfam07825, Exc, Excisionase-like protein	NA|357aa|up_1|NZ_CP031134.1_111686_112757_+	cd00800, INT_Lambda_C, C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase	NA|428aa|up_0|NZ_CP031134.1_112891_114175_+	PRK10531, PRK10531, putative acyl-CoA thioester hydrolase	NA|754aa|down_0|NZ_CP031134.1_114408_116670_-	PRK11413, PRK11413, putative hydratase; Provisional	NA|478aa|down_1|NZ_CP031134.1_116852_118286_-	pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane region	NA|351aa|down_2|NZ_CP031134.1_118361_119414_-	NF033377, OMA_tautomer, 4-oxalomesaconate tautomerase	NA|318aa|down_3|NZ_CP031134.1_119597_120551_+	cd08440, PBP2_LTTR_like_4, TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	NA|332aa|down_4|NZ_CP031134.1_120591_121587_-	PRK11028, PRK11028, 6-phosphogluconolactonase; Provisional	NA|273aa|down_5|NZ_CP031134.1_121741_122560_+	PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase; Provisional	NA|353aa|down_6|NZ_CP031134.1_122560_123619_-	PRK11144, modC, molybdenum ABC transporter ATP-binding protein ModC	NA|230aa|down_7|NZ_CP031134.1_123621_124311_-	PRK09421, modB, molybdate ABC transporter permease subunit	NA|258aa|down_8|NZ_CP031134.1_124310_125084_-	PRK10677, modA, molybdate transporter periplasmic protein; Provisional	NA|50aa|down_9|NZ_CP031134.1_125250_125400_-	pfam10766, AcrZ, Multidrug efflux pump-associated protein AcrZ
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	2	927721-927853	1	PILER-CR	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	ATCACCAATATTGAAAA	17	0	0	NA	NA	NA	2	2	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|156aa|up_9|NZ_CP031134.1_918961_919429_+,NA	NA|156aa|up_9|NZ_CP031134.1_918961_919429_+	NA	NA|60aa|up_8|NZ_CP031134.1_919527_919707_-	pfam07362, CcdA, Post-segregation antitoxin CcdA	NA|160aa|up_7|NZ_CP031134.1_919727_920207_-	PRK10769, folA, type 3 dihydrofolate reductase	NA|621aa|up_6|NZ_CP031134.1_920399_922262_-	PRK03562, PRK03562, glutathione-regulated potassium-efflux system protein KefC; Provisional	NA|177aa|up_5|NZ_CP031134.1_922254_922785_-	PRK00871, PRK00871, glutathione-regulated potassium-efflux system oxidoreductase KefF	NA|444aa|up_4|NZ_CP031134.1_922892_924224_-	cd17316, MFS_SV2_like, Metazoan Synaptic vesicle glycoprotein 2 (SV2) and related small molecule transporters of the Major Facilitator Superfamily	NA|96aa|up_3|NZ_CP031134.1_924282_924570_-	PRK15449, PRK15449, ferredoxin-like protein FixX; Provisional	NA|429aa|up_2|NZ_CP031134.1_924566_925853_-	PRK10157, PRK10157, putative oxidoreductase FixC; Provisional	NA|314aa|up_1|NZ_CP031134.1_925903_926845_-	PRK03363, fixB, electron transfer flavoprotein subunit alpha/FixB family protein	NA|257aa|up_0|NZ_CP031134.1_926859_927630_-	PRK03359, PRK03359, putative electron transfer flavoprotein FixA; Reviewed	NA|505aa|down_0|NZ_CP031134.1_928103_929618_+	PRK03356, PRK03356, L-carnitine/gamma-butyrobetaine antiport BCCT transporter	NA|381aa|down_1|NZ_CP031134.1_929648_930791_+	PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated	NA|406aa|down_2|NZ_CP031134.1_930919_932137_+	PRK03525, PRK03525, L-carnitine CoA-transferase	NA|518aa|down_3|NZ_CP031134.1_932210_933764_+	PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase; Validated	NA|262aa|down_4|NZ_CP031134.1_933872_934658_+	PRK03580, PRK03580, crotonobetainyl-CoA hydratase	NA|197aa|down_5|NZ_CP031134.1_934663_935254_+	PRK13627, PRK13627, carnitine operon protein CaiE; Provisional	NA|132aa|down_6|NZ_CP031134.1_935339_935735_-	PRK11476, PRK11476, carnitine metabolism transcriptional regulator CaiF	NA|1074aa|down_7|NZ_CP031134.1_935995_939217_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|383aa|down_8|NZ_CP031134.1_939234_940383_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|274aa|down_9|NZ_CP031134.1_940838_941660_-	COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	3	1129744-1129890	2	CRISPRCasFinder	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	TGTTGTTATTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACACAGA	49	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA|310aa|down_6|NZ_CP031134.1_1136921_1137851_-,NA|193aa|down_7|NZ_CP031134.1_1137941_1138520_-	NA|340aa|up_9|NZ_CP031134.1_1117957_1118977_+	cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD)	NA|188aa|up_8|NZ_CP031134.1_1118980_1119544_-	PRK09825, idnK, gluconokinase	NA|344aa|up_7|NZ_CP031134.1_1119760_1120792_+	PRK09880, PRK09880, L-idonate 5-dehydrogenase; Provisional	NA|255aa|up_6|NZ_CP031134.1_1120815_1121580_+	PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional	NA|440aa|up_5|NZ_CP031134.1_1121644_1122964_+	TIGR00791, Gluconate_permease, gluconate transporter	NA|333aa|up_4|NZ_CP031134.1_1123030_1124029_+	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_CP031134.1_1124106_1125609_+	pfam05872, DUF853, Bacterial protein of unknown function (DUF853)	NA|361aa|up_2|NZ_CP031134.1_1125769_1126852_-	PRK15071, PRK15071, lipopolysaccharide ABC transporter permease; Provisional	NA|367aa|up_1|NZ_CP031134.1_1126851_1127952_-	PRK15120, PRK15120, lipopolysaccharide ABC transporter permease LptF; Provisional	NA|504aa|up_0|NZ_CP031134.1_1128218_1129730_+	PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional	NA|148aa|down_0|NZ_CP031134.1_1129990_1130434_+	PRK05728, PRK05728, DNA polymerase III subunit chi; Validated	NA|952aa|down_1|NZ_CP031134.1_1130433_1133289_+	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|399aa|down_2|NZ_CP031134.1_1133342_1134539_-	COG4269, COG4269, Predicted membrane protein [Function unknown]	NA|168aa|down_3|NZ_CP031134.1_1134731_1135235_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|139aa|down_4|NZ_CP031134.1_1135281_1135698_-	PRK11191, PRK11191, ribonuclease E inhibitor RraB	NA|335aa|down_5|NZ_CP031134.1_1135859_1136864_+	PRK03515, PRK03515, ornithine carbamoyltransferase subunit I; Provisional	NA|310aa|down_6|NZ_CP031134.1_1136921_1137851_-	NA	NA|193aa|down_7|NZ_CP031134.1_1137941_1138520_-	NA	NA|151aa|down_8|NZ_CP031134.1_1138642_1139095_-	COG2731, EbgC, Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]	NA|198aa|down_9|NZ_CP031134.1_1139239_1139833_-	COG1309, AcrR, Transcriptional regulator [Transcription]
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	4	2380660-2380777	3	CRISPRCasFinder	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	TGCCGGATGCGATGCTGGCGCACCTTATCCGGCCTACGGG	40	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA|55aa|down_0|NZ_CP031134.1_2380850_2381015_-	NA|115aa|up_9|NZ_CP031134.1_2368381_2368726_-	PRK11424, PRK11424, DNA-binding transcriptional activator TdcR; Provisional	NA|313aa|up_8|NZ_CP031134.1_2368914_2369853_+	PRK10341, PRK10341, transcriptional regulator TdcA	NA|330aa|up_7|NZ_CP031134.1_2369951_2370941_+	PRK08638, PRK08638, bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB	NA|444aa|up_6|NZ_CP031134.1_2370962_2372294_+	PRK13629, PRK13629, threonine/serine transporter TdcC; Provisional	NA|403aa|up_5|NZ_CP031134.1_2372319_2373528_+	PRK12379, PRK12379, propionate kinase	NA|765aa|up_4|NZ_CP031134.1_2373561_2375856_+	cd01678, PFL1, Pyruvate formate lyase 1	NA|130aa|up_3|NZ_CP031134.1_2375869_2376259_+	PRK11401, PRK11401, enamine/imine deaminase	NA|455aa|up_2|NZ_CP031134.1_2376330_2377695_+	PRK15040, PRK15040, L-serine ammonia-lyase	NA|444aa|up_1|NZ_CP031134.1_2377969_2379301_+	TIGR00814, membrane_transport_protein_YhjV, serine transporter	NA|437aa|up_0|NZ_CP031134.1_2379328_2380639_+	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|55aa|down_0|NZ_CP031134.1_2380850_2381015_-	NA	NA|234aa|down_1|NZ_CP031134.1_2381037_2381739_-	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|299aa|down_2|NZ_CP031134.1_2381843_2382740_+	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_CP031134.1_2382790_2383147_-	COG3152, COG3152, Predicted membrane protein [Function unknown]	NA|122aa|down_4|NZ_CP031134.1_2383388_2383754_-	COG3152, COG3152, Predicted membrane protein [Function unknown]	NA|329aa|down_5|NZ_CP031134.1_2384046_2385033_-	COG0435, ECM4, Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]	NA|161aa|down_6|NZ_CP031134.1_2385102_2385585_-	COG2259, COG2259, Predicted membrane protein [Function unknown]	NA|100aa|down_7|NZ_CP031134.1_2385680_2385980_-	pfam13997, YqjK, YqjK-like protein	NA|135aa|down_8|NZ_CP031134.1_2385969_2386374_-	COG5393, COG5393, Predicted membrane protein [Function unknown]	NA|102aa|down_9|NZ_CP031134.1_2386376_2386682_-	COG4575, ElaB, Uncharacterized conserved protein [Function unknown]
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	5	2820596-2821173	2,4,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	9,9,9	9	TypeI-E	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|121aa|up_3|NZ_CP031134.1_2817492_2817855_-,NA	NA|745aa|up_9|NZ_CP031134.1_2810428_2812663_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|83aa|up_8|NZ_CP031134.1_2812740_2812989_+	PRK09798, PRK09798, MazF-MazE toxin-antitoxin system antitoxin MazE	NA|112aa|up_7|NZ_CP031134.1_2812988_2813324_+	PRK09907, PRK09907, endoribonuclease MazF	NA|264aa|up_6|NZ_CP031134.1_2813394_2814186_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_5|NZ_CP031134.1_2814413_2816051_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_4|NZ_CP031134.1_2816138_2817437_+	PRK00077, eno, enolase; Provisional	NA|121aa|up_3|NZ_CP031134.1_2817492_2817855_-	NA	NA|302aa|up_2|NZ_CP031134.1_2817890_2818796_-	COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only]	NA|201aa|up_1|NZ_CP031134.1_2818809_2819412_-	COG1704, LemA, Uncharacterized conserved protein [Function unknown]	NA|224aa|up_0|NZ_CP031134.1_2819584_2820256_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|185aa|down_0|NZ_CP031134.1_2821811_2822366_-	cd07779, FGGY_ygcE_like, uncharacterized ygcE-like proteins	NA|121aa|down_1|NZ_CP031134.1_2822405_2822768_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_2|NZ_CP031134.1_2823086_2824886_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_3|NZ_CP031134.1_2824885_2826598_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_4|NZ_CP031134.1_2826671_2827406_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|51aa|down_5|NZ_CP031134.1_2827670_2827823_+	pfam01848, HOK_GEF, Hok/gef family	cas3|900aa|down_6|NZ_CP031134.1_2828017_2830717_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|521aa|down_7|NZ_CP031134.1_2830814_2832377_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|179aa|down_8|NZ_CP031134.1_2832373_2832910_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|352aa|down_9|NZ_CP031134.1_2832921_2833977_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	6	2836673-2837374	3,5,2	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	11,11,11	11	TypeI-E	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA	NA|245aa|up_9|NZ_CP031134.1_2826671_2827406_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|51aa|up_8|NZ_CP031134.1_2827670_2827823_+	pfam01848, HOK_GEF, Hok/gef family	cas3|900aa|up_7|NZ_CP031134.1_2828017_2830717_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|521aa|up_6|NZ_CP031134.1_2830814_2832377_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|179aa|up_5|NZ_CP031134.1_2832373_2832910_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|352aa|up_4|NZ_CP031134.1_2832921_2833977_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP031134.1_2833987_2834734_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP031134.1_2834715_2835366_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP031134.1_2835362_2836283_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP031134.1_2836282_2836576_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|346aa|down_0|NZ_CP031134.1_2837455_2838493_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP031134.1_2838744_2839653_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|476aa|down_2|NZ_CP031134.1_2839654_2841082_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP031134.1_2841081_2841687_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP031134.1_2841736_2842060_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP031134.1_2842253_2842565_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP031134.1_2842583_2843294_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP031134.1_2843293_2843773_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP031134.1_2843769_2844819_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP031134.1_2844799_2845561_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	7	3273725-3273813	6	CRISPRCasFinder	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	GGTTGTCCAACGGTTGTCCAACG	23	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|84aa|up_9|NZ_CP031134.1_3269525_3269777_-,NA|149aa|up_7|NZ_CP031134.1_3270154_3270601_-,NA|91aa|up_6|NZ_CP031134.1_3270519_3270792_-,NA|139aa|up_5|NZ_CP031134.1_3270803_3271220_+,NA|123aa|up_4|NZ_CP031134.1_3271366_3271735_-,NA|54aa|up_0|NZ_CP031134.1_3273192_3273354_+,NA|131aa|down_5|NZ_CP031134.1_3277237_3277630_+	NA|84aa|up_9|NZ_CP031134.1_3269525_3269777_-	NA	NA|46aa|up_8|NZ_CP031134.1_3269831_3269969_-	pfam17583, DUF5484, Family of unknown function (DUF5484)	NA|149aa|up_7|NZ_CP031134.1_3270154_3270601_-	NA	NA|91aa|up_6|NZ_CP031134.1_3270519_3270792_-	NA	NA|139aa|up_5|NZ_CP031134.1_3270803_3271220_+	NA	NA|123aa|up_4|NZ_CP031134.1_3271366_3271735_-	NA	NA|239aa|up_3|NZ_CP031134.1_3271753_3272470_-	COG1974, LexA, SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]	NA|65aa|up_2|NZ_CP031134.1_3272576_3272771_+	pfam09048, Cro, Cro	NA|93aa|up_1|NZ_CP031134.1_3272879_3273158_+	pfam05269, Phage_CII, Bacteriophage CII protein	NA|54aa|up_0|NZ_CP031134.1_3273192_3273354_+	NA	NA|479aa|down_0|NZ_CP031134.1_3274220_3275657_+	TIGR03600, phage_DnaB, phage replicative helicase, DnaB family, HK022 subfamily	NA|147aa|down_1|NZ_CP031134.1_3275934_3276375_+	pfam05772, NinB, NinB protein	NA|176aa|down_2|NZ_CP031134.1_3276371_3276899_+	TIGR01712, DNA_N-6-adenine-methyltransferase_M	NA|61aa|down_3|NZ_CP031134.1_3276895_3277078_+	pfam05322, NinE, NINE Protein	NA|58aa|down_4|NZ_CP031134.1_3277074_3277248_+	pfam05810, NinF, NinF protein	NA|131aa|down_5|NZ_CP031134.1_3277237_3277630_+	NA	NA|97aa|down_6|NZ_CP031134.1_3277622_3277913_+	pfam07102, DUF1364, Protein of unknown function (DUF1364)	NA|175aa|down_7|NZ_CP031134.1_3277909_3278434_+	pfam13392, HNH_3, HNH endonuclease	NA|121aa|down_8|NZ_CP031134.1_3278434_3278797_+	PRK09786, PRK09786, endodeoxyribonuclease RUS; Reviewed	NA|63aa|down_9|NZ_CP031134.1_3278793_3278982_+	pfam06322, Phage_NinH, Phage NinH protein
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	8	4010038-4010161	7	CRISPRCasFinder	no	DEDDh	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Unclear	CGACCCCCACCATGTCAAGGTGGTGCTCTAACCAACTGAGCTA	43	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA|30aa|down_7|NZ_CP031134.1_4019057_4019147_+	NA|79aa|up_9|NZ_CP031134.1_3998944_3999181_-	PRK15396, PRK15396, major outer membrane lipoprotein	NA|471aa|up_8|NZ_CP031134.1_3999491_4000904_-	PRK09206, PRK09206, pyruvate kinase PykF	NA|70aa|up_7|NZ_CP031134.1_4001460_4001670_+	PRK10292, PRK10292, fumarate hydratase FumD	NA|209aa|up_6|NZ_CP031134.1_4002125_4002752_+	PRK09898, PRK09898, ferredoxin-like protein	NA|213aa|up_5|NZ_CP031134.1_4004887_4005526_+	PRK09947, PRK09947, YdhW family putative oxidoreductase system protein	NA|223aa|up_4|NZ_CP031134.1_4005589_4006258_+	TIGR03149, cyt_nit_nrfC, cytochrome c nitrite reductase, Fe-S protein	NA|262aa|up_3|NZ_CP031134.1_4006254_4007040_+	PRK15006, PRK15006, thiosulfate reductase cytochrome B subunit; Provisional	NA|271aa|up_2|NZ_CP031134.1_4007043_4007856_+	PRK09946, PRK09946, hypothetical protein; Provisional	NA|535aa|up_1|NZ_CP031134.1_4007867_4009472_-	PRK09897, PRK09897, FAD-NAD(P)-binding protein	NA|102aa|up_0|NZ_CP031134.1_4009597_4009903_-	PRK11118, PRK11118, putative monooxygenase; Provisional	NA|419aa|down_0|NZ_CP031134.1_4010475_4011732_+	PRK09945, PRK09945, hypothetical protein; Provisional	NA|458aa|down_1|NZ_CP031134.1_4011772_4013146_-	PRK01766, PRK01766, multidrug efflux protein; Reviewed	NA|214aa|down_2|NZ_CP031134.1_4013360_4014002_+	PRK13020, PRK13020, riboflavin synthase subunit alpha; Provisional	NA|383aa|down_3|NZ_CP031134.1_4014041_4015190_-	PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase	NA|404aa|down_4|NZ_CP031134.1_4015480_4016692_-	PRK11043, PRK11043, Bcr/CflA family multidrug efflux MFS transporter	NA|311aa|down_5|NZ_CP031134.1_4016804_4017737_+	PRK11074, PRK11074, putative DNA-binding transcriptional regulator; Provisional	NA|342aa|down_6|NZ_CP031134.1_4017733_4018759_-	PRK10703, PRK10703, HTH-type transcriptional repressor PurR	NA|30aa|down_7|NZ_CP031134.1_4019057_4019147_+	NA	NA|390aa|down_8|NZ_CP031134.1_4019312_4020482_+	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|194aa|down_9|NZ_CP031134.1_4020627_4021209_-	PRK10543, PRK10543, superoxide dismutase [Fe]
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	9	4664435-4664526	8	CRISPRCasFinder	no		DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Orphan	CCACCTTTTTTACCTGCTTCAGATGC	26	0	0	NA	NA	NA	1	1	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|70aa|up_9|NZ_CP031134.1_4653685_4653895_-,NA	NA|70aa|up_9|NZ_CP031134.1_4653685_4653895_-	NA	NA|1321aa|up_8|NZ_CP031134.1_4653949_4657912_+	PRK11809, putA, trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed	NA|213aa|up_7|NZ_CP031134.1_4657951_4658590_-	PRK15008, PRK15008, HTH-type transcriptional regulator RutR; Provisional	NA|364aa|up_6|NZ_CP031134.1_4658877_4659969_+	TIGR03612, RutA, pyrimidine utilization protein A	NA|231aa|up_5|NZ_CP031134.1_4659968_4660661_+	TIGR03614, RutB, pyrimidine utilization protein B	NA|129aa|up_4|NZ_CP031134.1_4660672_4661059_+	TIGR03610, RutC, pyrimidine utilization protein C	NA|267aa|up_3|NZ_CP031134.1_4661066_4661867_+	TIGR03611, RutD, pyrimidine utilization protein D	NA|197aa|up_2|NZ_CP031134.1_4661876_4662467_+	PRK05365, PRK05365, malonic semialdehyde reductase; Provisional	NA|165aa|up_1|NZ_CP031134.1_4662477_4662972_+	TIGR03615, flavoprotein_oxidoreductase, pyrimidine utilization flavin reductase protein F	NA|443aa|up_0|NZ_CP031134.1_4662992_4664321_+	TIGR03616, Putative_pyrimidine_permease_RutG, pyrimidine utilization transport protein G	NA|199aa|down_0|NZ_CP031134.1_4664949_4665546_+	PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional	NA|76aa|down_1|NZ_CP031134.1_4665566_4665794_+	PRK10174, PRK10174, hypothetical protein; Provisional	NA|414aa|down_2|NZ_CP031134.1_4665831_4667073_-	PRK10173, PRK10173, glucose-1-phosphatase/inositol phosphatase; Provisional	NA|420aa|down_3|NZ_CP031134.1_4667364_4668624_-	PRK09784, PRK09784, YccE family protein	NA|307aa|down_4|NZ_CP031134.1_4668883_4669804_+	PRK10266, PRK10266, curved DNA-binding protein	NA|102aa|down_5|NZ_CP031134.1_4669803_4670109_+	PRK10265, PRK10265, chaperone modulator CbpM	NA|200aa|down_6|NZ_CP031134.1_4670201_4670801_-	PRK04976, torD, chaperone protein TorD; Validated	NA|849aa|down_7|NZ_CP031134.1_4670797_4673344_-	PRK15102, PRK15102, trimethylamine-N-oxide reductase TorA	NA|391aa|down_8|NZ_CP031134.1_4673343_4674516_-	PRK15032, PRK15032, pentaheme c-type cytochrome TorC	NA|231aa|down_9|NZ_CP031134.1_4674645_4675338_+	PRK10766, PRK10766, two-component system response regulator TorR
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	10	4806661-4807888	9,3,4	CRISPRCasFinder,CRT,PILER-CR	no	cas6f,cas7f,cas5f,cas8f,cas3f,cas1	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Type I-F	TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAAC	28,28,28	0	0	NA	NA	I-F:I-F:I-F	20,20,19	20	TypeI-F	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA	NA|431aa|up_9|NZ_CP031134.1_4791978_4793271_-	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|448aa|up_8|NZ_CP031134.1_4793361_4794705_-	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|204aa|up_7|NZ_CP031134.1_4794715_4795327_-	TIGR00547, Outer-membrane_lipoprotein_carrier_protein, periplasmic chaperone LolA	NA|1356aa|up_6|NZ_CP031134.1_4795481_4799549_-	PRK10263, PRK10263, DNA translocase FtsK; Provisional	NA|165aa|up_5|NZ_CP031134.1_4799683_4800178_-	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|322aa|up_4|NZ_CP031134.1_4800722_4801688_+	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|589aa|up_3|NZ_CP031134.1_4801810_4803577_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_2|NZ_CP031134.1_4803577_4805299_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_1|NZ_CP031134.1_4805340_4806045_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|73aa|up_0|NZ_CP031134.1_4806329_4806548_+	PRK00276, infA, translation initiation factor IF-1; Validated	cas6f|185aa|down_0|NZ_CP031134.1_4808430_4808985_-	cd09739, Cas6_I-F, CRISPR/Cas system-associated RAMP superfamily protein Cas6f	cas7f|334aa|down_1|NZ_CP031134.1_4808995_4809997_-	pfam09615, Cas_Csy3, CRISPR-associated protein (Cas_Csy3)	cas5f|308aa|down_2|NZ_CP031134.1_4810007_4810931_-	pfam09614, Cas_Csy2, CRISPR-associated protein (Cas_Csy2)	cas8f|436aa|down_3|NZ_CP031134.1_4810927_4812235_-	cd09735, Csy1_I-F, CRISPR/Cas system-associated protein Csy1	cas3f|1078aa|down_4|NZ_CP031134.1_4812565_4815799_-	TIGR02562, conserved_hypothetical_protein, CRISPR-associated helicase Cas3, subtype I-F/YPEST	cas1|328aa|down_5|NZ_CP031134.1_4815795_4816779_-	TIGR03637, cas1_YPEST, CRISPR-associated endonuclease Cas1, subtype I-F/YPEST	NA|759aa|down_6|NZ_CP031134.1_4817971_4820248_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_7|NZ_CP031134.1_4820278_4820599_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|75aa|down_8|NZ_CP031134.1_4820921_4821146_+	PRK09937, PRK09937, cold shock-like protein CspD	NA|649aa|down_9|NZ_CP031134.1_4821218_4823165_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB
GCF_003342715.1_ASM334271v1	NZ_CP031134	Escherichia coli strain CFSAN064035 chromosome, complete genome	11	4816952-4817759	10,4,5	CRISPRCasFinder,CRT,PILER-CR	no	cas6f,cas7f,cas5f,cas8f,cas3f,cas1	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f	Type I-F	TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAAC	28,28,28	0	0	NA	NA	I-F:I-F:I-F	13,13,12	13	TypeI-F	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA,NA	NA|589aa|up_9|NZ_CP031134.1_4801810_4803577_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_8|NZ_CP031134.1_4803577_4805299_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_7|NZ_CP031134.1_4805340_4806045_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|73aa|up_6|NZ_CP031134.1_4806329_4806548_+	PRK00276, infA, translation initiation factor IF-1; Validated	cas6f|185aa|up_5|NZ_CP031134.1_4808430_4808985_-	cd09739, Cas6_I-F, CRISPR/Cas system-associated RAMP superfamily protein Cas6f	cas7f|334aa|up_4|NZ_CP031134.1_4808995_4809997_-	pfam09615, Cas_Csy3, CRISPR-associated protein (Cas_Csy3)	cas5f|308aa|up_3|NZ_CP031134.1_4810007_4810931_-	pfam09614, Cas_Csy2, CRISPR-associated protein (Cas_Csy2)	cas8f|436aa|up_2|NZ_CP031134.1_4810927_4812235_-	cd09735, Csy1_I-F, CRISPR/Cas system-associated protein Csy1	cas3f|1078aa|up_1|NZ_CP031134.1_4812565_4815799_-	TIGR02562, conserved_hypothetical_protein, CRISPR-associated helicase Cas3, subtype I-F/YPEST	cas1|328aa|up_0|NZ_CP031134.1_4815795_4816779_-	TIGR03637, cas1_YPEST, CRISPR-associated endonuclease Cas1, subtype I-F/YPEST	NA|759aa|down_0|NZ_CP031134.1_4817971_4820248_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_1|NZ_CP031134.1_4820278_4820599_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|75aa|down_2|NZ_CP031134.1_4820921_4821146_+	PRK09937, PRK09937, cold shock-like protein CspD	NA|649aa|down_3|NZ_CP031134.1_4821218_4823165_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|372aa|down_4|NZ_CP031134.1_4823161_4824277_-	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional	NA|319aa|down_5|NZ_CP031134.1_4824427_4825384_+	COG2990, VirK, Uncharacterized protein conserved in bacteria [Function unknown]	NA|553aa|down_6|NZ_CP031134.1_4825380_4827039_-	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]	NA|232aa|down_7|NZ_CP031134.1_4827464_4828160_+	PRK05420, PRK05420, aquaporin Z; Provisional	NA|300aa|down_8|NZ_CP031134.1_4828654_4829554_+	COG2431, COG2431, Predicted membrane protein [Function unknown]	NA|551aa|down_9|NZ_CP031134.1_4829697_4831350_+	PRK05290, PRK05290, hybrid cluster protein; Provisional
GCF_003342715.1_ASM334271v1	NZ_CP031135	Escherichia coli strain CFSAN064035 plasmid pGMI17-003_1, complete sequence	1	301548-301783	1	CRT	no		PD-DExK,csa3	Orphan	CATTCATGCAANTGCTTTT	19	0	0	NA	NA	NA	5	5	Orphan	DinG,RT,DEDDh,c2c9_V-U4,WYL,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas6f,cas7f,cas5f,cas8f,cas3f,PD-DExK	NA|169aa|up_6|NZ_CP031135.1_296182_296689_-,NA|147aa|up_4|NZ_CP031135.1_298045_298486_-,NA|118aa|up_0|NZ_CP031135.1_300894_301248_-,NA|292aa|down_0|NZ_CP031135.1_302781_303657_-,NA|358aa|down_1|NZ_CP031135.1_304198_305272_+,NA|67aa|down_2|NZ_CP031135.1_305289_305490_+,NA|274aa|down_4|NZ_CP031135.1_306472_307294_+	NA|894aa|up_9|NZ_CP031135.1_291674_294356_-	TIGR02746, hypothetical_protein, type-IV secretion system protein TraC	NA|317aa|up_8|NZ_CP031135.1_294364_295315_-	pfam09676, TraV, Type IV conjugative transfer system lipoprotein (TraV)	NA|286aa|up_7|NZ_CP031135.1_295324_296182_-	cd03020, DsbA_DsbC_DsbG, DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold	NA|169aa|up_6|NZ_CP031135.1_296182_296689_-	NA	NA|453aa|up_5|NZ_CP031135.1_296697_298056_-	cd16430, TraB, TraB is a homolog of VirB10 which forms part of core complex in Type IV secretion system (T4SS)	NA|147aa|up_4|NZ_CP031135.1_298045_298486_-	NA	NA|413aa|up_3|NZ_CP031135.1_298487_299726_-	pfam06586, TraK, TraK protein	NA|262aa|up_2|NZ_CP031135.1_299728_300514_-	pfam05309, TraE, TraE protein	NA|106aa|up_1|NZ_CP031135.1_300525_300843_-	pfam07178, TraL, TraL protein	NA|118aa|up_0|NZ_CP031135.1_300894_301248_-	NA	NA|292aa|down_0|NZ_CP031135.1_302781_303657_-	NA	NA|358aa|down_1|NZ_CP031135.1_304198_305272_+	NA	NA|67aa|down_2|NZ_CP031135.1_305289_305490_+	NA	NA|240aa|down_3|NZ_CP031135.1_305486_306206_+	cd10719, DnaJ_zf, Zinc finger domain of DnaJ and HSP40	NA|274aa|down_4|NZ_CP031135.1_306472_307294_+	NA	NA|282aa|down_5|NZ_CP031135.1_307308_308154_-	TIGR00571, DNA_adenine_methylase, DNA adenine methylase (dam)	NA|385aa|down_6|NZ_CP031135.1_308493_309648_+	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|NA	NA	NA|NA	NA	NA|NA	NA
