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_012051625.1_ASM1205162v1	NZ_CP050734	Salmonella enterica subsp. enterica serovar Typhimurium strain ST90 chromosome, complete genome	1	651614-651714	1	CRISPRCasFinder	no		csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	Orphan	GCTTCAGTGGCGAACGTCGTGAA	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	NA,NA|177aa|down_1|NZ_CP050734.1_653232_653763_-	NA|448aa|up_9|NZ_CP050734.1_637692_639036_-	PRK05370, PRK05370, argininosuccinate synthase; Validated	NA|151aa|up_8|NZ_CP050734.1_639663_640116_+	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed	NA|501aa|up_7|NZ_CP050734.1_640143_641646_+	PRK09202, nusA, transcription elongation factor NusA; Validated	NA|893aa|up_6|NZ_CP050734.1_641670_644349_+	PRK05306, infB, translation initiation factor IF-2; Validated	NA|134aa|up_5|NZ_CP050734.1_644569_644971_+	PRK00521, rbfA, 30S ribosome-binding factor RbfA	NA|315aa|up_4|NZ_CP050734.1_644970_645915_+	PRK05033, truB, tRNA pseudouridine synthase B; Provisional	NA|90aa|up_3|NZ_CP050734.1_646065_646335_+	PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	NA|712aa|up_2|NZ_CP050734.1_646576_648712_+	PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional	NA|295aa|up_1|NZ_CP050734.1_648821_649706_+	PRK11189, PRK11189, lipoprotein NlpI; Provisional	NA|27aa|up_0|NZ_CP050734.1_649811_649892_+	NF033440, small_YrbN, protein YrbN	NA|415aa|down_0|NZ_CP050734.1_651927_653172_+	PRK10483, PRK10483, tryptophan permease; Provisional	NA|177aa|down_1|NZ_CP050734.1_653232_653763_-	NA	NA|240aa|down_2|NZ_CP050734.1_653921_654641_+	COG3034, COG3034, Uncharacterized protein conserved in bacteria [Function unknown]	NA|336aa|down_3|NZ_CP050734.1_654618_655626_-	PRK10508, PRK10508, luciferase-like monooxygenase	NA|299aa|down_4|NZ_CP050734.1_655803_656700_-	PRK15447, PRK15447, putative protease; Provisional	NA|332aa|down_5|NZ_CP050734.1_656690_657686_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|175aa|down_6|NZ_CP050734.1_657902_658427_+	COG3154, COG3154, Putative lipid carrier protein [Lipid metabolism]	NA|168aa|down_7|NZ_CP050734.1_658420_658924_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|106aa|down_8|NZ_CP050734.1_658910_659228_-	PRK00329, PRK00329, GIY-YIG nuclease superfamily protein; Validated	NA|148aa|down_9|NZ_CP050734.1_659265_659709_+	PRK03467, PRK03467, hypothetical protein; Provisional
GCF_012051625.1_ASM1205162v1	NZ_CP050734	Salmonella enterica subsp. enterica serovar Typhimurium strain ST90 chromosome, complete genome	2	1002480-1004461	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	31,32,32	32	TypeI-E	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	NA,NA	NA|381aa|up_9|NZ_CP050734.1_988280_989423_+	COG1929, COG1929, Glycerate kinase [Carbohydrate transport and metabolism]	NA|919aa|up_8|NZ_CP050734.1_989466_992223_-	PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional	NA|432aa|up_7|NZ_CP050734.1_992280_993576_+	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|745aa|up_6|NZ_CP050734.1_993627_995862_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|119aa|up_5|NZ_CP050734.1_995945_996302_+	COG3609, COG3609, Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]	NA|99aa|up_4|NZ_CP050734.1_996267_996564_+	COG3668, ParE, Plasmid stabilization system protein [General function prediction only]	NA|267aa|up_3|NZ_CP050734.1_997329_998130_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP050734.1_998357_999995_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP050734.1_1000077_1001376_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP050734.1_1001511_1002183_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|266aa|down_0|NZ_CP050734.1_1004558_1005356_+	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]	NA|121aa|down_1|NZ_CP050734.1_1005443_1005806_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_2|NZ_CP050734.1_1006229_1008029_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_3|NZ_CP050734.1_1008028_1009741_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_4|NZ_CP050734.1_1009816_1010551_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_5|NZ_CP050734.1_1010638_1011592_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|down_6|NZ_CP050734.1_1012036_1014700_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|down_7|NZ_CP050734.1_1014711_1016268_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|down_8|NZ_CP050734.1_1016264_1016825_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|down_9|NZ_CP050734.1_1016838_1017897_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI
GCF_012051625.1_ASM1205162v1	NZ_CP050734	Salmonella enterica subsp. enterica serovar Typhimurium strain ST90 chromosome, complete genome	3	1020593-1021477	2,3,2	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	13,14,14	14	TypeI-E	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	NA,NA	NA|245aa|up_9|NZ_CP050734.1_1009816_1010551_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP050734.1_1010638_1011592_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP050734.1_1012036_1014700_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|up_6|NZ_CP050734.1_1014711_1016268_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP050734.1_1016264_1016825_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP050734.1_1016838_1017897_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP050734.1_1017907_1018654_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP050734.1_1018635_1019286_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP050734.1_1019282_1020203_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP050734.1_1020202_1020496_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP050734.1_1021959_1023006_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP050734.1_1023256_1024165_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP050734.1_1024174_1025614_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP050734.1_1025600_1026206_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP050734.1_1026256_1026580_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP050734.1_1026770_1027082_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP050734.1_1027100_1027811_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP050734.1_1027810_1028290_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP050734.1_1028286_1029336_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP050734.1_1029316_1030078_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_012051625.1_ASM1205162v1	NZ_CP050734	Salmonella enterica subsp. enterica serovar Typhimurium strain ST90 chromosome, complete genome	4	1021551-1021945	3,4,3	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	5,6,6	6	TypeI-E	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	NA,NA	NA|245aa|up_9|NZ_CP050734.1_1009816_1010551_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP050734.1_1010638_1011592_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP050734.1_1012036_1014700_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|up_6|NZ_CP050734.1_1014711_1016268_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP050734.1_1016264_1016825_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP050734.1_1016838_1017897_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP050734.1_1017907_1018654_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP050734.1_1018635_1019286_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP050734.1_1019282_1020203_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP050734.1_1020202_1020496_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP050734.1_1021959_1023006_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP050734.1_1023256_1024165_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP050734.1_1024174_1025614_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP050734.1_1025600_1026206_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP050734.1_1026256_1026580_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP050734.1_1026770_1027082_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP050734.1_1027100_1027811_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP050734.1_1027810_1028290_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP050734.1_1028286_1029336_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP050734.1_1029316_1030078_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_012051625.1_ASM1205162v1	NZ_CP050734	Salmonella enterica subsp. enterica serovar Typhimurium strain ST90 chromosome, complete genome	5	1212861-1212970	5	CRISPRCasFinder	no		csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	Orphan	TGTCCCACCCTGTACCACTTTTTTTTAA	28	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,cas14j,DEDDh,DinG,RT	NA,NA|276aa|down_2|NZ_CP050734.1_1215758_1216586_+,NA|198aa|down_4|NZ_CP050734.1_1218503_1219097_-,NA|80aa|down_7|NZ_CP050734.1_1222495_1222735_+	NA|188aa|up_9|NZ_CP050734.1_1203651_1204215_+	TIGR03127, RuMP_HxlB, 6-phospho 3-hexuloisomerase	NA|212aa|up_8|NZ_CP050734.1_1204238_1204874_+	TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase	NA|401aa|up_7|NZ_CP050734.1_1204947_1206150_-	pfam13020, DUF3883, Domain of unknown function (DUF3883)	NA|338aa|up_6|NZ_CP050734.1_1206444_1207458_-	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only]	NA|327aa|up_5|NZ_CP050734.1_1207468_1208449_-	COG3732, SrlE, Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]	NA|125aa|up_4|NZ_CP050734.1_1208445_1208820_-	COG3731, SrlB, Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]	NA|174aa|up_3|NZ_CP050734.1_1208816_1209338_-	COG3730, SrlA, Phosphotransferase system sorbitol-specific component IIC [Carbohydrate transport and metabolism]	NA|95aa|up_2|NZ_CP050734.1_1209450_1209735_-	COG3423, Nlp, Predicted transcriptional regulator [Transcription]	NA|119aa|up_1|NZ_CP050734.1_1209829_1210186_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|273aa|up_0|NZ_CP050734.1_1210339_1211158_-	pfam14491, DUF4435, Protein of unknown function (DUF4435)	NA|690aa|down_0|NZ_CP050734.1_1212987_1215057_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|72aa|down_1|NZ_CP050734.1_1215092_1215308_-	COG3311, AlpA, Predicted transcriptional regulator [Transcription]	NA|276aa|down_2|NZ_CP050734.1_1215758_1216586_+	NA	NA|398aa|down_3|NZ_CP050734.1_1216920_1218114_-	pfam02810, SEC-C, SEC-C motif	NA|198aa|down_4|NZ_CP050734.1_1218503_1219097_-	NA	NA|342aa|down_5|NZ_CP050734.1_1220717_1221743_-	PHA02601, int, integrase; Provisional	NA|211aa|down_6|NZ_CP050734.1_1221746_1222379_-	pfam16452, Phage_CI_C, Bacteriophage CI repressor C-terminal domain	NA|80aa|down_7|NZ_CP050734.1_1222495_1222735_+	NA	NA|170aa|down_8|NZ_CP050734.1_1222770_1223280_+	pfam06892, Phage_CP76, Phage regulatory protein CII (CP76)	NA|78aa|down_9|NZ_CP050734.1_1223287_1223521_+	pfam10893, DUF2724, Protein of unknown function (DUF2724)
