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_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	1	1003221-1004470	1,1,1,2	PILER-CR,CRISPRCasFinder,CRT,PILER-CR	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACC	29,29,29,28	0	0	NA	NA	I-E:I-E:I-E:I-E	18,20,20,18	20	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA|47aa|up_1|NZ_CP007390.1_1001930_1002071_-,NA	NA|434aa|up_9|NZ_CP007390.1_992627_993929_+	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|745aa|up_8|NZ_CP007390.1_993976_996211_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|83aa|up_7|NZ_CP007390.1_996288_996537_+	PRK09798, PRK09798, MazF-MazE toxin-antitoxin system antitoxin MazE	NA|112aa|up_6|NZ_CP007390.1_996536_996872_+	PRK09907, PRK09907, endoribonuclease MazF	NA|264aa|up_5|NZ_CP007390.1_996942_997734_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_4|NZ_CP007390.1_997961_999599_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_3|NZ_CP007390.1_999686_1000985_+	PRK00077, eno, enolase; Provisional	NA|291aa|up_2|NZ_CP007390.1_1001044_1001917_-	COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only]	NA|47aa|up_1|NZ_CP007390.1_1001930_1002071_-	NA	NA|224aa|up_0|NZ_CP007390.1_1002209_1002881_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|493aa|down_0|NZ_CP007390.1_1005108_1006587_-	cd07779, FGGY_ygcE_like, uncharacterized ygcE-like proteins	NA|426aa|down_1|NZ_CP007390.1_1006613_1007891_-	cd06174, MFS, Major Facilitator Superfamily	NA|262aa|down_2|NZ_CP007390.1_1008209_1008995_+	cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs	NA|485aa|down_3|NZ_CP007390.1_1009064_1010519_+	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|470aa|down_4|NZ_CP007390.1_1010540_1011950_+	cd17371, MFS_MucK, Cis,cis-muconate transport protein and similar proteins of the Major Facilitator Superfamily	NA|260aa|down_5|NZ_CP007390.1_1011927_1012707_+	COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy production and conversion]	NA|287aa|down_6|NZ_CP007390.1_1012703_1013564_+	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|192aa|down_7|NZ_CP007390.1_1013711_1014287_-	COG1954, GlpP, Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]	NA|87aa|down_8|NZ_CP007390.1_1014303_1014564_-	COG2440, FixX, Ferredoxin-like protein [Energy production and conversion]	NA|424aa|down_9|NZ_CP007390.1_1014554_1015826_-	PRK10015, PRK10015, oxidoreductase; Provisional
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	2	1031280-1031796	2,3	CRISPRCasFinder,PILER-CR	no	cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTTCCCCGCGTCAGCGGGGATAAACCG	29,27	0	0	NA	NA	I-E:I-E	8,8	8	TypeI-E	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA	NA|245aa|up_9|NZ_CP007390.1_1020169_1020904_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|100aa|up_8|NZ_CP007390.1_1022765_1023065_+	pfam01527, HTH_Tnp_1, Transposase	NA|289aa|up_7|NZ_CP007390.1_1023061_1023928_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas8e|503aa|up_6|NZ_CP007390.1_1025604_1027113_+	PRK09693, PRK09693, Cascade antiviral complex protein; Validated	cse2gr11|161aa|up_5|NZ_CP007390.1_1027105_1027588_+	cd09670, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|364aa|up_4|NZ_CP007390.1_1027600_1028692_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|225aa|up_3|NZ_CP007390.1_1028694_1029369_+	TIGR01868, hypothetical_protein, CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI	cas6e|200aa|up_2|NZ_CP007390.1_1029355_1029955_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|306aa|up_1|NZ_CP007390.1_1029970_1030888_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|95aa|up_0|NZ_CP007390.1_1030889_1031174_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|346aa|down_0|NZ_CP007390.1_1031877_1032915_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP007390.1_1033166_1034075_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|476aa|down_2|NZ_CP007390.1_1034076_1035504_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP007390.1_1035503_1036109_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP007390.1_1036158_1036482_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP007390.1_1036675_1036987_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP007390.1_1037005_1037716_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP007390.1_1037715_1038195_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP007390.1_1038191_1039241_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP007390.1_1039221_1039983_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	3	1565485-1565602	3	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	CCGAGCCGTAGGCCGGATAAGGCGTTCACGC	31	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA	NA|268aa|up_9|NZ_CP007390.1_1554120_1554924_+	PRK10128, PRK10128, 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	NA|301aa|up_8|NZ_CP007390.1_1554964_1555867_-	PRK09956, PRK09956, ISNCY family transposase	NA|397aa|up_7|NZ_CP007390.1_1556060_1557251_-	TIGR03379, glycerol3P_GlpC, glycerol-3-phosphate dehydrogenase, anaerobic, C subunit	NA|420aa|up_6|NZ_CP007390.1_1557247_1558507_-	COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]	NA|543aa|up_5|NZ_CP007390.1_1558496_1560125_-	PRK11101, glpA, anaerobic glycerol-3-phosphate dehydrogenase subunit A	NA|453aa|up_4|NZ_CP007390.1_1560397_1561756_+	PRK11273, glpT, glycerol-3-phosphate transporter	NA|359aa|up_3|NZ_CP007390.1_1561760_1562837_+	PRK11143, glpQ, glycerophosphodiester phosphodiesterase; Provisional	NA|217aa|up_2|NZ_CP007390.1_1563299_1563950_+	PRK09902, PRK09902, lipopolysaccharide kinase InaA	NA|85aa|up_1|NZ_CP007390.1_1564003_1564258_-	PRK10713, PRK10713, 2Fe-2S ferredoxin-like protein	NA|377aa|up_0|NZ_CP007390.1_1564257_1565388_-	PRK09101, nrdB, ribonucleotide-diphosphate reductase subunit beta; Reviewed	NA|762aa|down_0|NZ_CP007390.1_1565621_1567907_-	PRK09103, PRK09103, ribonucleoside-diphosphate reductase subunit alpha	NA|1245aa|down_1|NZ_CP007390.1_1568602_1572337_+	PRK09752, PRK09752, AIDA-I family autotransporter YfaL	NA|241aa|down_2|NZ_CP007390.1_1572464_1573187_-	PRK05134, PRK05134, bifunctional 2-polyprenyl-6-hydroxyphenol methylase/3-demethylubiquinol 3-O-methyltransferase UbiG	NA|876aa|down_3|NZ_CP007390.1_1573333_1575961_+	PRK05560, PRK05560, DNA gyrase subunit A; Validated	NA|563aa|down_4|NZ_CP007390.1_1576109_1577798_+	COG4685, COG4685, Uncharacterized protein conserved in bacteria [Function unknown]	NA|208aa|down_5|NZ_CP007390.1_1577794_1578418_+	COG3234, COG3234, Uncharacterized protein conserved in bacteria [Function unknown]	NA|1465aa|down_6|NZ_CP007390.1_1578561_1582956_+	COG2373, COG2373, Large extracellular alpha-helical protein [General function prediction only]	NA|550aa|down_7|NZ_CP007390.1_1582956_1584606_+	COG5445, COG5445, Predicted secreted protein [Function unknown]	NA|259aa|down_8|NZ_CP007390.1_1584610_1585387_+	COG4676, COG4676, Uncharacterized protein conserved in bacteria [Function unknown]	NA|950aa|down_9|NZ_CP007390.1_1585661_1588511_+	PRK10841, PRK10841, two-component system sensor histidine kinase RcsC
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	4	2131884-2132007	4	CRISPRCasFinder	no	DEDDh	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Unclear	CGACCCCCACCATGTCAAGGTGGTGCTCTAACCAACTGAGCTA	43	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA|30aa|down_7|NZ_CP007390.1_2140903_2140993_+	NA|471aa|up_9|NZ_CP007390.1_2121338_2122751_-	PRK09206, PRK09206, pyruvate kinase PykF	NA|70aa|up_8|NZ_CP007390.1_2123307_2123517_+	PRK10292, PRK10292, fumarate hydratase FumD	NA|209aa|up_7|NZ_CP007390.1_2123971_2124598_+	PRK09898, PRK09898, ferredoxin-like protein	NA|701aa|up_6|NZ_CP007390.1_2124618_2126721_+	PRK09849, PRK09849, putative oxidoreductase; Provisional	NA|213aa|up_5|NZ_CP007390.1_2126733_2127372_+	PRK09947, PRK09947, YdhW family putative oxidoreductase system protein	NA|223aa|up_4|NZ_CP007390.1_2127435_2128104_+	TIGR03149, cyt_nit_nrfC, cytochrome c nitrite reductase, Fe-S protein	NA|262aa|up_3|NZ_CP007390.1_2128100_2128886_+	PRK15006, PRK15006, thiosulfate reductase cytochrome B subunit; Provisional	NA|271aa|up_2|NZ_CP007390.1_2128889_2129702_+	PRK09946, PRK09946, hypothetical protein; Provisional	NA|535aa|up_1|NZ_CP007390.1_2129713_2131318_-	PRK09897, PRK09897, FAD-NAD(P)-binding protein	NA|102aa|up_0|NZ_CP007390.1_2131443_2131749_-	PRK11118, PRK11118, putative monooxygenase; Provisional	NA|419aa|down_0|NZ_CP007390.1_2132321_2133578_+	PRK09945, PRK09945, hypothetical protein; Provisional	NA|458aa|down_1|NZ_CP007390.1_2133618_2134992_-	PRK01766, PRK01766, multidrug efflux protein; Reviewed	NA|214aa|down_2|NZ_CP007390.1_2135206_2135848_+	PRK13020, PRK13020, riboflavin synthase subunit alpha; Provisional	NA|383aa|down_3|NZ_CP007390.1_2135887_2137036_-	PRK11705, PRK11705, cyclopropane fatty acyl phospholipid synthase	NA|404aa|down_4|NZ_CP007390.1_2137326_2138538_-	PRK11043, PRK11043, Bcr/CflA family multidrug efflux MFS transporter	NA|311aa|down_5|NZ_CP007390.1_2138650_2139583_+	PRK11074, PRK11074, putative DNA-binding transcriptional regulator; Provisional	NA|342aa|down_6|NZ_CP007390.1_2139579_2140605_-	PRK10703, PRK10703, HTH-type transcriptional repressor PurR	NA|30aa|down_7|NZ_CP007390.1_2140903_2140993_+	NA	NA|390aa|down_8|NZ_CP007390.1_2141158_2142328_+	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]	NA|194aa|down_9|NZ_CP007390.1_2142562_2143144_-	PRK10543, PRK10543, superoxide dismutase [Fe]
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	5	2782441-2782532	5	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	CCACCTTTTTTACCTGCTTCAGATGC	26	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA|70aa|up_9|NZ_CP007390.1_2771518_2771728_-,NA	NA|70aa|up_9|NZ_CP007390.1_2771518_2771728_-	NA	NA|1321aa|up_8|NZ_CP007390.1_2771782_2775745_+	PRK11809, putA, trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed	NA|213aa|up_7|NZ_CP007390.1_2775783_2776422_-	PRK15008, PRK15008, HTH-type transcriptional regulator RutR; Provisional	NA|364aa|up_6|NZ_CP007390.1_2776709_2777801_+	TIGR03612, RutA, pyrimidine utilization protein A	NA|231aa|up_5|NZ_CP007390.1_2777800_2778493_+	TIGR03614, RutB, pyrimidine utilization protein B	NA|129aa|up_4|NZ_CP007390.1_2778504_2778891_+	TIGR03610, RutC, pyrimidine utilization protein C	NA|267aa|up_3|NZ_CP007390.1_2778898_2779699_+	TIGR03611, RutD, pyrimidine utilization protein D	NA|197aa|up_2|NZ_CP007390.1_2779708_2780299_+	PRK05365, PRK05365, malonic semialdehyde reductase; Provisional	NA|165aa|up_1|NZ_CP007390.1_2780309_2780804_+	TIGR03615, flavoprotein_oxidoreductase, pyrimidine utilization flavin reductase protein F	NA|443aa|up_0|NZ_CP007390.1_2780824_2782153_+	TIGR03616, Putative_pyrimidine_permease_RutG, pyrimidine utilization transport protein G	NA|199aa|down_0|NZ_CP007390.1_2782955_2783552_+	PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional	NA|76aa|down_1|NZ_CP007390.1_2783572_2783800_+	PRK10174, PRK10174, hypothetical protein; Provisional	NA|414aa|down_2|NZ_CP007390.1_2783837_2785079_-	PRK10173, PRK10173, glucose-1-phosphatase/inositol phosphatase; Provisional	NA|417aa|down_3|NZ_CP007390.1_2785373_2786624_-	PRK09784, PRK09784, YccE family protein	NA|307aa|down_4|NZ_CP007390.1_2786883_2787804_+	PRK10266, PRK10266, curved DNA-binding protein	NA|102aa|down_5|NZ_CP007390.1_2787803_2788109_+	PRK10265, PRK10265, chaperone modulator CbpM	NA|200aa|down_6|NZ_CP007390.1_2788260_2788860_-	PRK04976, torD, chaperone protein TorD; Validated	NA|849aa|down_7|NZ_CP007390.1_2788856_2791403_-	PRK15102, PRK15102, trimethylamine-N-oxide reductase TorA	NA|391aa|down_8|NZ_CP007390.1_2791402_2792575_-	PRK15032, PRK15032, pentaheme c-type cytochrome TorC	NA|231aa|down_9|NZ_CP007390.1_2792704_2793397_+	PRK10766, PRK10766, two-component system response regulator TorR
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	6	2924799-2925004	6,2,4	CRISPRCasFinder,CRT,PILER-CR	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAAC,TTTCTAAGCTGCCTGTACGGCAGTGAACG	28,28,29	0	0	NA	NA	I-F:I-F:I-F	3,3,2	3	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA	NA|431aa|up_9|NZ_CP007390.1_2909922_2911215_-	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|448aa|up_8|NZ_CP007390.1_2911305_2912649_-	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|204aa|up_7|NZ_CP007390.1_2912659_2913271_-	TIGR00547, Outer-membrane_lipoprotein_carrier_protein, periplasmic chaperone LolA	NA|1330aa|up_6|NZ_CP007390.1_2913425_2917415_-	PRK10263, PRK10263, DNA translocase FtsK; Provisional	NA|165aa|up_5|NZ_CP007390.1_2917549_2918044_-	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|322aa|up_4|NZ_CP007390.1_2918588_2919554_+	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|589aa|up_3|NZ_CP007390.1_2919676_2921443_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_2|NZ_CP007390.1_2921443_2923165_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_1|NZ_CP007390.1_2923206_2923911_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|73aa|up_0|NZ_CP007390.1_2924195_2924414_+	PRK00276, infA, translation initiation factor IF-1; Validated	NA|759aa|down_0|NZ_CP007390.1_2925214_2927491_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_1|NZ_CP007390.1_2927521_2927842_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|75aa|down_2|NZ_CP007390.1_2928164_2928389_+	PRK09937, PRK09937, cold shock-like protein CspD	NA|649aa|down_3|NZ_CP007390.1_2928461_2930408_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|372aa|down_4|NZ_CP007390.1_2930404_2931520_-	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional	NA|319aa|down_5|NZ_CP007390.1_2931670_2932627_+	COG2990, VirK, Uncharacterized protein conserved in bacteria [Function unknown]	NA|553aa|down_6|NZ_CP007390.1_2932623_2934282_-	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]	NA|300aa|down_7|NZ_CP007390.1_2935859_2936759_+	COG2431, COG2431, Predicted membrane protein [Function unknown]	NA|551aa|down_8|NZ_CP007390.1_2936902_2938555_+	PRK05290, PRK05290, hybrid cluster protein; Provisional	NA|323aa|down_9|NZ_CP007390.1_2938566_2939535_+	PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	7	3091070-3091214	7	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	GTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACAATAAGTGCCGGATGC	52	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA|147aa|up_8|NZ_CP007390.1_3086162_3086603_+,NA|79aa|up_7|NZ_CP007390.1_3086599_3086836_+,NA|106aa|up_6|NZ_CP007390.1_3086832_3087150_+,NA|56aa|up_3|NZ_CP007390.1_3088112_3088280_+,NA	NA|55aa|up_9|NZ_CP007390.1_3086001_3086166_+	pfam10930, DUF2737, Protein of unknown function (DUF2737)	NA|147aa|up_8|NZ_CP007390.1_3086162_3086603_+	NA	NA|79aa|up_7|NZ_CP007390.1_3086599_3086836_+	NA	NA|106aa|up_6|NZ_CP007390.1_3086832_3087150_+	NA	NA|180aa|up_5|NZ_CP007390.1_3087136_3087676_+	pfam04448, DUF551, Protein of unknown function (DUF551)	NA|93aa|up_4|NZ_CP007390.1_3087675_3087954_+	pfam15944, DUF4752, Domain of unknown function (DUF4752)	NA|56aa|up_3|NZ_CP007390.1_3088112_3088280_+	NA	NA|73aa|up_2|NZ_CP007390.1_3088319_3088538_+	pfam07825, Exc, Excisionase-like protein	NA|357aa|up_1|NZ_CP007390.1_3088515_3089586_+	cd00800, INT_Lambda_C, C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase	NA|428aa|up_0|NZ_CP007390.1_3089720_3091004_+	PRK10531, PRK10531, putative acyl-CoA thioester hydrolase	NA|754aa|down_0|NZ_CP007390.1_3091237_3093499_-	PRK11413, PRK11413, putative hydratase; Provisional	NA|478aa|down_1|NZ_CP007390.1_3093681_3095115_-	pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane region	NA|351aa|down_2|NZ_CP007390.1_3095190_3096243_-	NF033377, OMA_tautomer, 4-oxalomesaconate tautomerase	NA|318aa|down_3|NZ_CP007390.1_3096426_3097380_+	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_CP007390.1_3097420_3098416_-	PRK11028, PRK11028, 6-phosphogluconolactonase; Provisional	NA|273aa|down_5|NZ_CP007390.1_3098570_3099389_+	PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase; Provisional	NA|353aa|down_6|NZ_CP007390.1_3099389_3100448_-	PRK11144, modC, molybdenum ABC transporter ATP-binding protein ModC	NA|230aa|down_7|NZ_CP007390.1_3100450_3101140_-	PRK09421, modB, molybdate ABC transporter permease subunit	NA|258aa|down_8|NZ_CP007390.1_3101139_3101913_-	PRK10677, modA, molybdate transporter periplasmic protein; Provisional	NA|50aa|down_9|NZ_CP007390.1_3102079_3102229_-	pfam10766, AcrZ, Multidrug efflux pump-associated protein AcrZ
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	8	3329756-3329852	8	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	TTGTAGGCCTGATAAGATGCGTCAAGC	27	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA	NA|231aa|up_9|NZ_CP007390.1_3321551_3322244_-	PRK15195, PRK15195, molecular chaperone FimC	NA|181aa|up_8|NZ_CP007390.1_3322463_3323006_-	PRK15194, PRK15194, type 1 fimbrial protein subunit FimA	NA|289aa|up_7|NZ_CP007390.1_3323476_3324343_+	PRK10792, PRK10792, bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	NA|71aa|up_6|NZ_CP007390.1_3324344_3324557_+	PRK11507, PRK11507, ribosome-associated protein YbcJ	NA|174aa|up_5|NZ_CP007390.1_3324664_3325186_+	COG1988, COG1988, Predicted membrane-bound metal-dependent hydrolases [General function prediction only]	NA|462aa|up_4|NZ_CP007390.1_3325221_3326607_-	PRK00260, cysS, cysteinyl-tRNA synthetase; Validated	NA|165aa|up_3|NZ_CP007390.1_3326780_3327275_+	PRK10791, PRK10791, peptidylprolyl isomerase B	NA|241aa|up_2|NZ_CP007390.1_3327277_3328000_+	PRK05340, PRK05340, UDP-2,3-diacylglucosamine hydrolase; Provisional	NA|170aa|up_1|NZ_CP007390.1_3328117_3328627_+	COG0041, PurE, Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]	NA|356aa|up_0|NZ_CP007390.1_3328623_3329691_+	PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed	NA|298aa|down_0|NZ_CP007390.1_3329895_3330789_-	PRK09411, PRK09411, carbamate kinase; Reviewed	NA|272aa|down_1|NZ_CP007390.1_3330785_3331601_-	pfam11392, DUF2877, Protein of unknown function (DUF2877)	NA|420aa|down_2|NZ_CP007390.1_3331611_3332871_-	pfam06545, DUF1116, Protein of unknown function (DUF1116)	NA|556aa|down_3|NZ_CP007390.1_3332880_3334548_-	PRK06091, PRK06091, membrane protein FdrA; Validated	NA|350aa|down_4|NZ_CP007390.1_3334864_3335914_+	PRK15025, PRK15025, ureidoglycolate dehydrogenase; Provisional	NA|412aa|down_5|NZ_CP007390.1_3335935_3337171_+	TIGR03176, AllC, allantoate amidohydrolase	NA|262aa|down_6|NZ_CP007390.1_3337181_3337967_+	TIGR03214, ura-cupin, putative allantoin catabolism protein	NA|382aa|down_7|NZ_CP007390.1_3338194_3339340_-	PRK09932, PRK09932, glycerate 3-kinase	NA|434aa|down_8|NZ_CP007390.1_3339361_3340663_-	PRK11412, PRK11412, uracil/xanthine transporter	NA|454aa|down_9|NZ_CP007390.1_3340719_3342081_-	PRK08044, PRK08044, allantoinase AllB
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	9	3463418-3463562	9	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	TTTTGTAGGCCTGATAAGACGCGACAAGCGTCGCATCAGGCAT	43	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA|28aa|down_2|NZ_CP007390.1_3465607_3465691_-	NA|357aa|up_9|NZ_CP007390.1_3448559_3449630_-	PRK00147, queA, S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional	NA|194aa|up_8|NZ_CP007390.1_3449722_3450304_+	PRK10045, PRK10045, ACP phosphodiesterase	NA|606aa|up_7|NZ_CP007390.1_3450308_3452126_-	PRK10785, PRK10785, maltodextrin glucosidase; Provisional	NA|458aa|up_6|NZ_CP007390.1_3452281_3453655_-	PRK10580, proY, putative proline-specific permease; Provisional	NA|440aa|up_5|NZ_CP007390.1_3453730_3455050_-	PRK15433, PRK15433, branched-chain amino acid transporter carrier protein BrnQ	NA|432aa|up_4|NZ_CP007390.1_3455456_3456752_-	PRK11006, phoR, phosphate regulon sensor histidine kinase PhoR	NA|230aa|up_3|NZ_CP007390.1_3456809_3457499_-	PRK10161, PRK10161, phosphate response regulator transcription factor PhoB	NA|401aa|up_2|NZ_CP007390.1_3457688_3458891_+	PRK10966, PRK10966, exonuclease subunit SbcD; Provisional	NA|1048aa|up_1|NZ_CP007390.1_3458887_3462031_+	PRK10246, PRK10246, exonuclease subunit SbcC; Provisional	NA|395aa|up_0|NZ_CP007390.1_3462156_3463341_+	PRK10091, PRK10091, MFS transport protein AraJ; Provisional	NA|303aa|down_0|NZ_CP007390.1_3463585_3464494_-	PRK09557, PRK09557, fructokinase; Reviewed	NA|304aa|down_1|NZ_CP007390.1_3464618_3465530_+	COG2974, RdgC, DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]	NA|28aa|down_2|NZ_CP007390.1_3465607_3465691_-	NA	NA|95aa|down_3|NZ_CP007390.1_3466177_3466462_-	PRK10579, PRK10579, pyrimidine/purine nucleoside phosphorylase	NA|226aa|down_4|NZ_CP007390.1_3466533_3467211_-	PRK10481, PRK10481, hypothetical protein; Provisional	NA|64aa|down_5|NZ_CP007390.1_3467468_3467660_-	PRK10380, PRK10380, hypothetical protein; Provisional	NA|175aa|down_6|NZ_CP007390.1_3467709_3468234_-	PRK03731, aroL, shikimate kinase AroL	NA|155aa|down_7|NZ_CP007390.1_3468410_3468875_-	PRK00124, PRK00124, YaiI/YqxD family protein	NA|270aa|down_8|NZ_CP007390.1_3468994_3469804_+	PRK11880, PRK11880, pyrroline-5-carboxylate reductase; Reviewed	NA|372aa|down_9|NZ_CP007390.1_3469820_3470936_-	PRK10245, adrA, diguanylate cyclase AdrA; Provisional
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	10	3867294-3867423	10	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	GCTGGAGAGCAACCGTAGGCCGGATAAGATGCGCCAGCAT	40	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA,NA	NA|177aa|up_9|NZ_CP007390.1_3853479_3854010_-	PRK00871, PRK00871, glutathione-regulated potassium-efflux system oxidoreductase KefF	NA|453aa|up_8|NZ_CP007390.1_3854091_3855450_-	cd17316, MFS_SV2_like, Metazoan Synaptic vesicle glycoprotein 2 (SV2) and related small molecule transporters of the Major Facilitator Superfamily	NA|96aa|up_7|NZ_CP007390.1_3855508_3855796_-	PRK15449, PRK15449, ferredoxin-like protein FixX; Provisional	NA|429aa|up_6|NZ_CP007390.1_3855792_3857079_-	PRK10157, PRK10157, putative oxidoreductase FixC; Provisional	NA|314aa|up_5|NZ_CP007390.1_3857129_3858071_-	PRK03363, fixB, electron transfer flavoprotein subunit alpha/FixB family protein	NA|381aa|up_4|NZ_CP007390.1_3861650_3862793_+	PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated	NA|406aa|up_3|NZ_CP007390.1_3862921_3864139_+	PRK03525, PRK03525, L-carnitine CoA-transferase	NA|518aa|up_2|NZ_CP007390.1_3864212_3865766_+	PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase; Validated	NA|262aa|up_1|NZ_CP007390.1_3865874_3866660_+	PRK03580, PRK03580, crotonobetainyl-CoA hydratase	NA|197aa|up_0|NZ_CP007390.1_3866665_3867256_+	PRK13627, PRK13627, carnitine operon protein CaiE; Provisional	NA|132aa|down_0|NZ_CP007390.1_3867464_3867860_-	PRK11476, PRK11476, carnitine metabolism transcriptional regulator CaiF	NA|1074aa|down_1|NZ_CP007390.1_3868121_3871343_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|383aa|down_2|NZ_CP007390.1_3871360_3872509_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|274aa|down_3|NZ_CP007390.1_3872964_3873786_-	COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]	NA|305aa|down_4|NZ_CP007390.1_3873952_3874867_-	PRK10768, PRK10768, ribonucleoside hydrolase RihC; Provisional	NA|317aa|down_5|NZ_CP007390.1_3874932_3875883_-	PRK01045, ispH, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed	NA|150aa|down_6|NZ_CP007390.1_3875884_3876334_-	PRK15095, PRK15095, FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional	NA|165aa|down_7|NZ_CP007390.1_3876458_3876953_-	PRK00376, lspA, lipoprotein signal peptidase	NA|939aa|down_8|NZ_CP007390.1_3876952_3879769_-	PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed	NA|314aa|down_9|NZ_CP007390.1_3879811_3880753_-	PRK05627, PRK05627, bifunctional riboflavin kinase/FAD synthetase
GCF_000599625.1_ASM59962v1	NZ_CP007390	Escherichia coli strain ST540 chromosome, complete genome	11	4156620-4156769	11	CRISPRCasFinder	no		c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	Orphan	TGAACGCCTTATCCGACCTACACAGCACTGAACTCGTAGGCCTGATAAGACGCG	54	0	0	NA	NA	NA	1	1	Orphan	c2c9_V-U4,cas3,csa3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,DEDDh,DinG	NA|191aa|up_6|NZ_CP007390.1_4147551_4148124_+,NA|528aa|down_6|NZ_CP007390.1_4163965_4165549_-	NA|256aa|up_9|NZ_CP007390.1_4144384_4145152_+	PRK11231, fecE, Fe(3+) dicitrate ABC transporter ATP-binding protein FecE	NA|86aa|up_8|NZ_CP007390.1_4145709_4145967_-	COG2085, COG2085, Predicted dinucleotide-binding enzymes [General function prediction only]	NA|117aa|up_7|NZ_CP007390.1_4147100_4147451_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|191aa|up_6|NZ_CP007390.1_4147551_4148124_+	NA	NA|275aa|up_5|NZ_CP007390.1_4148172_4148997_-	pfam18863, AbiJ_NTD4, AbiJ N-terminal domain 4	NA|340aa|up_4|NZ_CP007390.1_4149810_4150830_+	cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD)	NA|501aa|up_3|NZ_CP007390.1_4150959_4152462_+	pfam05872, DUF853, Bacterial protein of unknown function (DUF853)	NA|361aa|up_2|NZ_CP007390.1_4152622_4153705_-	PRK15071, PRK15071, lipopolysaccharide ABC transporter permease; Provisional	NA|367aa|up_1|NZ_CP007390.1_4153704_4154805_-	PRK15120, PRK15120, lipopolysaccharide ABC transporter permease LptF; Provisional	NA|504aa|up_0|NZ_CP007390.1_4155071_4156583_+	PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional	NA|148aa|down_0|NZ_CP007390.1_4156936_4157380_+	PRK05728, PRK05728, DNA polymerase III subunit chi; Validated	NA|952aa|down_1|NZ_CP007390.1_4157379_4160235_+	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|399aa|down_2|NZ_CP007390.1_4160288_4161485_-	COG4269, COG4269, Predicted membrane protein [Function unknown]	NA|168aa|down_3|NZ_CP007390.1_4161677_4162181_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|139aa|down_4|NZ_CP007390.1_4162226_4162643_-	PRK11191, PRK11191, ribonuclease E inhibitor RraB	NA|335aa|down_5|NZ_CP007390.1_4162804_4163809_+	PRK03515, PRK03515, ornithine carbamoyltransferase subunit I; Provisional	NA|528aa|down_6|NZ_CP007390.1_4163965_4165549_-	NA	NA|151aa|down_7|NZ_CP007390.1_4165671_4166124_-	COG2731, EbgC, Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]	NA|198aa|down_8|NZ_CP007390.1_4166268_4166862_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|238aa|down_9|NZ_CP007390.1_4166932_4167646_+	PRK12742, PRK12742, SDR family oxidoreductase
