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_000017745.1_ASM1774v1	NC_009801	Escherichia coli O139:H28 str. E24377A, complete sequence	1	825257-825396	1	CRISPRCasFinder	no		DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	Orphan	CGGCACTTATTGTCGGATGCGATGCTTGCGCATCTTATCCGACCTAC	47	0	0	NA	NA	NA	1	1	Orphan	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	NA,NA|56aa|down_3|NC_009801.1_828185_828353_-,NA|201aa|down_4|NC_009801.1_828595_829198_+,NA|94aa|down_6|NC_009801.1_829728_830010_-	NA|50aa|up_9|NC_009801.1_814237_814387_+	pfam10766, AcrZ, Multidrug efflux pump-associated protein AcrZ	NA|258aa|up_8|NC_009801.1_814552_815326_+	PRK10677, modA, molybdate transporter periplasmic protein; Provisional	NA|230aa|up_7|NC_009801.1_815325_816015_+	PRK09421, modB, molybdate ABC transporter permease subunit	NA|353aa|up_6|NC_009801.1_816017_817076_+	PRK11144, modC, molybdenum ABC transporter ATP-binding protein ModC	NA|273aa|up_5|NC_009801.1_817076_817895_-	PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase; Provisional	NA|332aa|up_4|NC_009801.1_818049_819045_+	PRK11028, PRK11028, 6-phosphogluconolactonase; Provisional	NA|318aa|up_3|NC_009801.1_819085_820039_-	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|351aa|up_2|NC_009801.1_820222_821275_+	NF033377, OMA_tautomer, 4-oxalomesaconate tautomerase	NA|478aa|up_1|NC_009801.1_821350_822784_+	pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane region	NA|754aa|up_0|NC_009801.1_822966_825228_+	PRK11413, PRK11413, putative hydratase; Provisional	NA|428aa|down_0|NC_009801.1_825461_826745_-	PRK10531, PRK10531, putative acyl-CoA thioester hydrolase	NA|357aa|down_1|NC_009801.1_826879_827950_-	cd00800, INT_Lambda_C, C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase	NA|73aa|down_2|NC_009801.1_827927_828146_-	pfam07825, Exc, Excisionase-like protein	NA|56aa|down_3|NC_009801.1_828185_828353_-	NA	NA|201aa|down_4|NC_009801.1_828595_829198_+	NA	NA|74aa|down_5|NC_009801.1_829408_829630_-	PHA00080, PHA00080, DksA-like zinc finger domain containing protein	NA|94aa|down_6|NC_009801.1_829728_830010_-	NA	NA|64aa|down_7|NC_009801.1_830020_830212_-	pfam07131, DUF1382, Protein of unknown function (DUF1382)	NA|61aa|down_8|NC_009801.1_830184_830367_-	pfam07026, DUF1317, Protein of unknown function (DUF1317)	NA|227aa|down_9|NC_009801.1_830363_831044_-	pfam09588, YqaJ, YqaJ-like viral recombinase domain
GCF_000017745.1_ASM1774v1	NC_009801	Escherichia coli O139:H28 str. E24377A, complete sequence	2	975103-975251	2	CRISPRCasFinder	no		DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	Orphan	GTTCACTGCCGTACAGGCAGCTTAGAAAT	29	0	0	NA	NA	I-F	2	2	Orphan	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	NA,NA	NA|323aa|up_9|NC_009801.1_960571_961540_-	PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional	NA|551aa|up_8|NC_009801.1_961551_963204_-	PRK05290, PRK05290, hybrid cluster protein; Provisional	NA|300aa|up_7|NC_009801.1_963347_964247_-	COG2431, COG2431, Predicted membrane protein [Function unknown]	NA|232aa|up_6|NC_009801.1_964703_965399_-	PRK05420, PRK05420, aquaporin Z; Provisional	NA|553aa|up_5|NC_009801.1_965824_967483_+	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]	NA|319aa|up_4|NC_009801.1_967479_968436_-	COG2990, VirK, Uncharacterized protein conserved in bacteria [Function unknown]	NA|372aa|up_3|NC_009801.1_968586_969702_+	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional	NA|75aa|up_2|NC_009801.1_971716_971941_-	PRK09937, PRK09937, cold shock-like protein CspD	NA|107aa|up_1|NC_009801.1_972263_972584_+	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|759aa|up_0|NC_009801.1_972614_974891_+	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|73aa|down_0|NC_009801.1_975634_975853_-	PRK00276, infA, translation initiation factor IF-1; Validated	NA|235aa|down_1|NC_009801.1_976137_976842_-	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|574aa|down_2|NC_009801.1_976883_978605_-	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|589aa|down_3|NC_009801.1_978605_980372_-	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|322aa|down_4|NC_009801.1_980494_981460_-	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|165aa|down_5|NC_009801.1_982004_982499_+	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|1369aa|down_6|NC_009801.1_982633_986740_+	PRK10263, PRK10263, DNA translocase FtsK; Provisional	NA|204aa|down_7|NC_009801.1_986894_987506_+	TIGR00547, Outer-membrane_lipoprotein_carrier_protein, periplasmic chaperone LolA	NA|448aa|down_8|NC_009801.1_987516_988860_+	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|431aa|down_9|NC_009801.1_988950_990243_+	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional
GCF_000017745.1_ASM1774v1	NC_009801	Escherichia coli O139:H28 str. E24377A, complete sequence	3	3056470-3057231	1,3,1	PILER-CR,CRISPRCasFinder,CRT	no	cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	Type I-E	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC	29,29,29	0	0	NA	NA	I-E:I-E:I-E	12,12,12	12	TypeI-E	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	NA,NA	NA|254aa|up_9|NC_009801.1_3048282_3049044_-	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional	NA|350aa|up_8|NC_009801.1_3049024_3050074_-	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|160aa|up_7|NC_009801.1_3050070_3050550_-	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|237aa|up_6|NC_009801.1_3050549_3051260_-	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|104aa|up_5|NC_009801.1_3051278_3051590_-	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|108aa|up_4|NC_009801.1_3051783_3052107_-	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|202aa|up_3|NC_009801.1_3052156_3052762_-	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|476aa|up_2|NC_009801.1_3052761_3054189_-	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|303aa|up_1|NC_009801.1_3054190_3055099_-	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|346aa|up_0|NC_009801.1_3055350_3056388_+	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	cas1|307aa|down_0|NC_009801.1_3057620_3058541_-	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas6e|217aa|down_1|NC_009801.1_3058537_3059188_-	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas5|249aa|down_2|NC_009801.1_3059169_3059916_-	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|352aa|down_3|NC_009801.1_3059926_3060982_-	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cse2gr11|179aa|down_4|NC_009801.1_3060993_3061530_-	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas8e|521aa|down_5|NC_009801.1_3061526_3063089_-	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cas3|900aa|down_6|NC_009801.1_3063186_3065886_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	NA|51aa|down_7|NC_009801.1_3066079_3066232_-	pfam01848, HOK_GEF, Hok/gef family	NA|245aa|down_8|NC_009801.1_3066496_3067231_-	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|571aa|down_9|NC_009801.1_3067304_3069017_-	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit
GCF_000017745.1_ASM1774v1	NC_009801	Escherichia coli O139:H28 str. E24377A, complete sequence	4	3082931-3084484	4,2,2	CRISPRCasFinder,CRT,PILER-CR	no	cas3	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	Unclear	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC	29,29,29	1	1	3083387-3083418	NC_009801.1_2183273-2183242	I-E:I-E:I-E	25,25,17	25	Unclear	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	NA,NA|47aa|down_1|NC_009801.1_3085633_3085774_+	NA|424aa|up_9|NC_009801.1_3071574_3072846_+	PRK10015, PRK10015, oxidoreductase; Provisional	NA|87aa|up_8|NC_009801.1_3072836_3073097_+	COG2440, FixX, Ferredoxin-like protein [Energy production and conversion]	NA|192aa|up_7|NC_009801.1_3073113_3073689_+	COG1954, GlpP, Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]	NA|298aa|up_6|NC_009801.1_3073836_3074730_-	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|260aa|up_5|NC_009801.1_3074693_3075473_-	COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy production and conversion]	NA|470aa|up_4|NC_009801.1_3075450_3076860_-	cd17371, MFS_MucK, Cis,cis-muconate transport protein and similar proteins of the Major Facilitator Superfamily	NA|485aa|up_3|NC_009801.1_3076881_3078336_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|262aa|up_2|NC_009801.1_3078405_3079191_-	cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs	NA|426aa|up_1|NC_009801.1_3079509_3080787_+	cd06174, MFS, Major Facilitator Superfamily	NA|493aa|up_0|NC_009801.1_3080813_3082292_+	cd07779, FGGY_ygcE_like, uncharacterized ygcE-like proteins	NA|224aa|down_0|NC_009801.1_3084823_3085495_-	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|47aa|down_1|NC_009801.1_3085633_3085774_+	NA	NA|291aa|down_2|NC_009801.1_3085787_3086660_+	COG1512, COG1512, Beta-propeller domains of methanol dehydrogenase type [General function prediction only]	NA|433aa|down_3|NC_009801.1_3086719_3088018_-	PRK00077, eno, enolase; Provisional	NA|546aa|down_4|NC_009801.1_3088105_3089743_-	PRK05380, pyrG, CTP synthetase; Validated	NA|264aa|down_5|NC_009801.1_3089970_3090762_-	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|112aa|down_6|NC_009801.1_3090832_3091168_-	PRK09907, PRK09907, endoribonuclease MazF	NA|83aa|down_7|NC_009801.1_3091167_3091416_-	PRK09798, PRK09798, MazF-MazE toxin-antitoxin system antitoxin MazE	NA|745aa|down_8|NC_009801.1_3091493_3093728_-	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|434aa|down_9|NC_009801.1_3093775_3095077_-	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
GCF_000017745.1_ASM1774v1	NC_009801	Escherichia coli O139:H28 str. E24377A, complete sequence	5	4824702-4824851	5	CRISPRCasFinder	no	RT	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	Unclear	CGCGTCTTATCAGGCCTACGAGTTCGGTGCTGTGTAGGTCGGATAAGGCGTTCA	54	0	0	NA	NA	NA	1	1	Orphan	DEDDh,DinG,cas3,c2c9_V-U4,csa3,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,RT,WYL,PD-DExK	NA|470aa|up_6|NC_009801.1_4815994_4817404_+,NA	NA|238aa|up_9|NC_009801.1_4813897_4814611_-	PRK12742, PRK12742, SDR family oxidoreductase	NA|198aa|up_8|NC_009801.1_4814681_4815275_+	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|151aa|up_7|NC_009801.1_4815419_4815872_+	COG2731, EbgC, Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]	NA|470aa|up_6|NC_009801.1_4815994_4817404_+	NA	NA|338aa|up_5|NC_009801.1_4817650_4818664_-	PRK03515, PRK03515, ornithine carbamoyltransferase subunit I; Provisional	NA|139aa|up_4|NC_009801.1_4818825_4819242_+	PRK11191, PRK11191, ribonuclease E inhibitor RraB	NA|168aa|up_3|NC_009801.1_4819287_4819791_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|399aa|up_2|NC_009801.1_4819983_4821180_+	COG4269, COG4269, Predicted membrane protein [Function unknown]	NA|952aa|up_1|NC_009801.1_4821235_4824091_-	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|148aa|up_0|NC_009801.1_4824090_4824534_-	PRK05728, PRK05728, DNA polymerase III subunit chi; Validated	NA|504aa|down_0|NC_009801.1_4824887_4826399_-	PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional	NA|367aa|down_1|NC_009801.1_4826665_4827766_+	PRK15120, PRK15120, lipopolysaccharide ABC transporter permease LptF; Provisional	NA|361aa|down_2|NC_009801.1_4827765_4828848_+	PRK15071, PRK15071, lipopolysaccharide ABC transporter permease; Provisional	NA|501aa|down_3|NC_009801.1_4829008_4830511_-	pfam05872, DUF853, Bacterial protein of unknown function (DUF853)	NA|340aa|down_4|NC_009801.1_4830638_4831658_-	cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD)	RT|503aa|down_5|NC_009801.1_4833843_4835352_-	TIGR04416, hypothetical_protein, group II intron reverse transcriptase/maturase	NA|130aa|down_6|NC_009801.1_4836842_4837232_+	PRK09183, PRK09183, transposase/IS protein; Provisional	NA|73aa|down_7|NC_009801.1_4837282_4837501_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|100aa|down_8|NC_009801.1_4837567_4837867_+	pfam01527, HTH_Tnp_1, Transposase	NA|289aa|down_9|NC_009801.1_4837863_4838730_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed
