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_008727255.1_ASM872725v1	NZ_CP044155	Shigella flexneri strain AR-0424 chromosome, complete genome	1	616229-616355	1	CRISPRCasFinder	no		cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	Orphan	TTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGC	39	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	NA,NA	NA|550aa|up_9|NZ_CP044155.1_594608_596258_-	COG5445, COG5445, Predicted secreted protein [Function unknown]	NA|53aa|up_8|NZ_CP044155.1_596821_596980_-	COG2373, COG2373, Large extracellular alpha-helical protein [General function prediction only]	NA|390aa|up_7|NZ_CP044155.1_598532_599701_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|208aa|up_6|NZ_CP044155.1_602049_602673_-	COG3234, COG3234, Uncharacterized protein conserved in bacteria [Function unknown]	NA|876aa|up_5|NZ_CP044155.1_604506_607134_-	PRK05560, PRK05560, DNA gyrase subunit A; Validated	NA|241aa|up_4|NZ_CP044155.1_607280_608003_+	PRK05134, PRK05134, bifunctional 2-polyprenyl-6-hydroxyphenol methylase/3-demethylubiquinol 3-O-methyltransferase UbiG	NA|645aa|up_3|NZ_CP044155.1_608130_610065_-	PRK09752, PRK09752, AIDA-I family autotransporter YfaL	NA|552aa|up_2|NZ_CP044155.1_610074_611730_-	PRK09752, PRK09752, AIDA-I family autotransporter YfaL	NA|425aa|up_1|NZ_CP044155.1_611748_613022_+	PRK09409, PRK09409, IS2 transposase TnpB; Reviewed	NA|762aa|up_0|NZ_CP044155.1_613892_616178_+	PRK09103, PRK09103, ribonucleoside-diphosphate reductase subunit alpha	NA|377aa|down_0|NZ_CP044155.1_616411_617542_+	PRK09101, nrdB, ribonucleotide-diphosphate reductase subunit beta; Reviewed	NA|85aa|down_1|NZ_CP044155.1_617541_617796_+	PRK10713, PRK10713, 2Fe-2S ferredoxin-like protein	NA|217aa|down_2|NZ_CP044155.1_617849_618500_-	PRK09902, PRK09902, lipopolysaccharide kinase InaA	NA|359aa|down_3|NZ_CP044155.1_618962_620039_-	PRK11143, glpQ, glycerophosphodiester phosphodiesterase; Provisional	NA|453aa|down_4|NZ_CP044155.1_620043_621402_-	PRK11273, glpT, glycerol-3-phosphate transporter	NA|543aa|down_5|NZ_CP044155.1_621674_623303_+	PRK11101, glpA, anaerobic glycerol-3-phosphate dehydrogenase subunit A	NA|420aa|down_6|NZ_CP044155.1_623292_624552_+	COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]	NA|397aa|down_7|NZ_CP044155.1_624548_625739_+	TIGR03379, glycerol3P_GlpC, glycerol-3-phosphate dehydrogenase, anaerobic, C subunit	NA|317aa|down_8|NZ_CP044155.1_625931_626882_+	PRK09956, PRK09956, ISNCY family transposase	NA|157aa|down_9|NZ_CP044155.1_626922_627393_-	PRK10128, PRK10128, 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional
GCF_008727255.1_ASM872725v1	NZ_CP044155	Shigella flexneri strain AR-0424 chromosome, complete genome	2	1086198-1086353	2	CRISPRCasFinder	no		cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	Orphan	CTGCTTAAAAAAAGAACAAATGGTAGTGTCCGCTATTGCCAGTACACCTCAAA	53	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	NA|65aa|up_3|NZ_CP044155.1_1078082_1078277_-,NA	NA|291aa|up_9|NZ_CP044155.1_1071483_1072356_+	PRK10463, PRK10463, hydrogenase nickel incorporation protein HypB; Provisional	NA|91aa|up_8|NZ_CP044155.1_1072346_1072619_+	PRK10409, PRK10409, HypC/HybG/HupF family hydrogenase formation chaperone	NA|374aa|up_7|NZ_CP044155.1_1072618_1073740_+	PRK15062, PRK15062, hydrogenase isoenzymes formation protein HypD; Provisional	NA|337aa|up_6|NZ_CP044155.1_1073736_1074747_+	TIGR02124, Hydrogenase_expression/formation_protein_HypE, hydrogenase expression/formation protein HypE	NA|693aa|up_5|NZ_CP044155.1_1074820_1076899_+	PRK15429, PRK15429, formate hydrogenlyase transcriptional activator FlhA	NA|118aa|up_4|NZ_CP044155.1_1076935_1077289_-	pfam11756, YgbA_NO, Nitrous oxide-stimulated promoter	NA|65aa|up_3|NZ_CP044155.1_1078082_1078277_-	NA	NA|854aa|up_2|NZ_CP044155.1_1078352_1080914_+	PRK05399, PRK05399, DNA mismatch repair protein MutS; Provisional	NA|256aa|up_1|NZ_CP044155.1_1081722_1082490_-	COG1349, GlpR, Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]	NA|371aa|up_0|NZ_CP044155.1_1083875_1084987_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|699aa|down_0|NZ_CP044155.1_1086447_1088544_-	pfam09299, Mu-transpos_C, Mu transposase, C-terminal	NA|84aa|down_1|NZ_CP044155.1_1088545_1088797_-	COG3423, Nlp, Predicted transcriptional regulator [Transcription]	NA|188aa|down_2|NZ_CP044155.1_1088961_1089525_+	pfam07022, Phage_CI_repr, Bacteriophage CI repressor helix-turn-helix domain	NA|198aa|down_3|NZ_CP044155.1_1090744_1091338_-	COG0163, UbiX family flavin prenyltransferase [Coenzyme transport and metabolism]	NA|136aa|down_4|NZ_CP044155.1_1091484_1091892_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|331aa|down_5|NZ_CP044155.1_1092011_1093004_-	PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated	NA|380aa|down_6|NZ_CP044155.1_1093066_1094206_-	PRK10871, nlpD, murein hydrolase activator NlpD	NA|209aa|down_7|NZ_CP044155.1_1094345_1094972_-	PRK00312, pcm, protein-L-isoaspartate(D-aspartate) O-methyltransferase	NA|254aa|down_8|NZ_CP044155.1_1094965_1095727_-	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional	NA|350aa|down_9|NZ_CP044155.1_1095707_1096757_-	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed
GCF_008727255.1_ASM872725v1	NZ_CP044155	Shigella flexneri strain AR-0424 chromosome, complete genome	3	1500285-1500386	3	CRISPRCasFinder	no		cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	Orphan	TACAAAACACAACAACATCAACAA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	NA|55aa|up_0|NZ_CP044155.1_1500079_1500244_+,NA	NA|128aa|up_9|NZ_CP044155.1_1494025_1494409_+	PRK10629, PRK10629, EnvZ/OmpR regulon moderator MzrA	NA|102aa|up_8|NZ_CP044155.1_1494947_1495253_+	COG4575, ElaB, Uncharacterized conserved protein [Function unknown]	NA|135aa|up_7|NZ_CP044155.1_1495255_1495660_+	COG5393, COG5393, Predicted membrane protein [Function unknown]	NA|100aa|up_6|NZ_CP044155.1_1495649_1495949_+	pfam13997, YqjK, YqjK-like protein	NA|129aa|up_5|NZ_CP044155.1_1496044_1496431_+	COG2259, COG2259, Predicted membrane protein [Function unknown]	NA|329aa|up_4|NZ_CP044155.1_1496500_1497487_+	COG0435, ECM4, Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]	NA|123aa|up_3|NZ_CP044155.1_1497779_1498148_+	COG3152, COG3152, Predicted membrane protein [Function unknown]	NA|299aa|up_2|NZ_CP044155.1_1498354_1499251_-	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|234aa|up_1|NZ_CP044155.1_1499355_1500057_+	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|55aa|up_0|NZ_CP044155.1_1500079_1500244_+	NA	NA|437aa|down_0|NZ_CP044155.1_1500455_1501766_-	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|444aa|down_1|NZ_CP044155.1_1501793_1503125_-	TIGR00814, membrane_transport_protein_YhjV, serine transporter	NA|455aa|down_2|NZ_CP044155.1_1503399_1504764_-	PRK15040, PRK15040, L-serine ammonia-lyase	NA|130aa|down_3|NZ_CP044155.1_1504835_1505225_-	PRK11401, PRK11401, enamine/imine deaminase	NA|765aa|down_4|NZ_CP044155.1_1505238_1507533_-	cd01678, PFL1, Pyruvate formate lyase 1	NA|403aa|down_5|NZ_CP044155.1_1507566_1508775_-	PRK12379, PRK12379, propionate kinase	NA|444aa|down_6|NZ_CP044155.1_1508800_1510132_-	PRK13629, PRK13629, threonine/serine transporter TdcC; Provisional	NA|330aa|down_7|NZ_CP044155.1_1510153_1511143_-	PRK08638, PRK08638, bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB	NA|313aa|down_8|NZ_CP044155.1_1511241_1512180_-	PRK10341, PRK10341, transcriptional regulator TdcA	NA|115aa|down_9|NZ_CP044155.1_1512369_1512714_+	PRK11424, PRK11424, DNA-binding transcriptional activator TdcR; Provisional
GCF_008727255.1_ASM872725v1	NZ_CP044155	Shigella flexneri strain AR-0424 chromosome, complete genome	4	2932139-2932254	4	CRISPRCasFinder	no		cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	Orphan	GATAAGACGCGCCAGCGTCGCATCAGGCGTT	31	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,RT,TnsE_C,DinG,PrimPol,c2c9_V-U4	NA,NA	NA|126aa|up_9|NZ_CP044155.1_2918143_2918521_-	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed	NA|274aa|up_8|NZ_CP044155.1_2918523_2919345_-	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA	NA|330aa|up_7|NZ_CP044155.1_2919341_2920331_-	PRK00232, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed	NA|429aa|up_6|NZ_CP044155.1_2920330_2921617_-	PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA; Provisional	NA|785aa|up_5|NZ_CP044155.1_2921669_2924024_-	PRK03761, PRK03761, LPS assembly outer membrane complex protein LptD; Provisional	NA|272aa|up_4|NZ_CP044155.1_2924278_2925094_+	PRK09430, djlA, co-chaperone DjlA	NA|220aa|up_3|NZ_CP044155.1_2925210_2925870_-	PRK10158, PRK10158, bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA	NA|969aa|up_2|NZ_CP044155.1_2925881_2928788_-	PRK04914, PRK04914, RNA polymerase-associated protein RapA	NA|784aa|up_1|NZ_CP044155.1_2928952_2931304_-	PRK05762, PRK05762, DNA polymerase II; Reviewed	NA|232aa|up_0|NZ_CP044155.1_2931378_2932074_-	PRK08193, araD, L-ribulose-5-phosphate 4-epimerase AraD	NA|501aa|down_0|NZ_CP044155.1_2932273_2933776_-	PRK02929, PRK02929, L-arabinose isomerase; Provisional	NA|567aa|down_1|NZ_CP044155.1_2933786_2935487_-	PRK04123, PRK04123, ribulokinase; Provisional	NA|293aa|down_2|NZ_CP044155.1_2935825_2936704_+	PRK10572, PRK10572, arabinose operon transcriptional regulator AraC	NA|255aa|down_3|NZ_CP044155.1_2936789_2937554_+	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|233aa|down_4|NZ_CP044155.1_2937667_2938366_-	PRK10771, thiQ, thiamine ABC transporter ATP-binding protein ThiQ	NA|537aa|down_5|NZ_CP044155.1_2938349_2939960_-	PRK09433, thiP, thiamine transporter membrane protein; Reviewed	NA|328aa|down_6|NZ_CP044155.1_2939935_2940919_-	PRK11205, tbpA, thiamine transporter substrate binding subunit; Provisional	NA|552aa|down_7|NZ_CP044155.1_2941082_2942738_-	PRK13626, PRK13626, HTH-type transcriptional regulator SgrR	NA|44aa|down_8|NZ_CP044155.1_2942826_2942958_+	pfam15894, SgrT, Inhibitor of glucose uptake transporter SgrT	NA|393aa|down_9|NZ_CP044155.1_2943059_2944238_+	TIGR00899, Sugar_efflux_transporter_A, sugar efflux transporter
