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_002163995.1_ASM216399v1	NZ_CP020922	Salmonella enterica subsp. enterica strain 16A242 chromosome, complete genome	1	2370881-2370981	1	CRISPRCasFinder	no		DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	Orphan	GCTTCAGTGGCGAACGTCGTGAA	23	0	0	NA	NA	NA	1	1	Orphan	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	NA,NA|177aa|down_1|NZ_CP020922.1_2372499_2373030_-	NA|448aa|up_9|NZ_CP020922.1_2356959_2358303_-	PRK05370, PRK05370, argininosuccinate synthase; Validated	NA|151aa|up_8|NZ_CP020922.1_2358930_2359383_+	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed	NA|501aa|up_7|NZ_CP020922.1_2359410_2360913_+	PRK09202, nusA, transcription elongation factor NusA; Validated	NA|893aa|up_6|NZ_CP020922.1_2360937_2363616_+	PRK05306, infB, translation initiation factor IF-2; Validated	NA|134aa|up_5|NZ_CP020922.1_2363836_2364238_+	PRK00521, rbfA, 30S ribosome-binding factor RbfA	NA|315aa|up_4|NZ_CP020922.1_2364237_2365182_+	PRK05033, truB, tRNA pseudouridine synthase B; Provisional	NA|90aa|up_3|NZ_CP020922.1_2365332_2365602_+	PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	NA|712aa|up_2|NZ_CP020922.1_2365843_2367979_+	PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional	NA|295aa|up_1|NZ_CP020922.1_2368088_2368973_+	PRK11189, PRK11189, lipoprotein NlpI; Provisional	NA|27aa|up_0|NZ_CP020922.1_2369078_2369159_+	NF033440, small_YrbN, protein YrbN	NA|415aa|down_0|NZ_CP020922.1_2371194_2372439_+	PRK10483, PRK10483, tryptophan permease; Provisional	NA|177aa|down_1|NZ_CP020922.1_2372499_2373030_-	NA	NA|240aa|down_2|NZ_CP020922.1_2373188_2373908_+	COG3034, COG3034, Uncharacterized protein conserved in bacteria [Function unknown]	NA|336aa|down_3|NZ_CP020922.1_2373885_2374893_-	PRK10508, PRK10508, luciferase-like monooxygenase	NA|299aa|down_4|NZ_CP020922.1_2375070_2375967_-	PRK15447, PRK15447, putative protease; Provisional	NA|332aa|down_5|NZ_CP020922.1_2375957_2376953_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|175aa|down_6|NZ_CP020922.1_2377169_2377694_+	COG3154, COG3154, Putative lipid carrier protein [Lipid metabolism]	NA|168aa|down_7|NZ_CP020922.1_2377687_2378191_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|106aa|down_8|NZ_CP020922.1_2378177_2378495_-	PRK00329, PRK00329, GIY-YIG nuclease superfamily protein; Validated	NA|148aa|down_9|NZ_CP020922.1_2378532_2378976_+	PRK03467, PRK03467, hypothetical protein; Provisional
GCF_002163995.1_ASM216399v1	NZ_CP020922	Salmonella enterica subsp. enterica strain 16A242 chromosome, complete genome	2	2720790-2721123	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	4,5,5	5	TypeI-E	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	NA,NA	NA|381aa|up_9|NZ_CP020922.1_2706588_2707731_+	COG1929, COG1929, Glycerate kinase [Carbohydrate transport and metabolism]	NA|919aa|up_8|NZ_CP020922.1_2707774_2710531_-	PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional	NA|432aa|up_7|NZ_CP020922.1_2710588_2711884_+	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|745aa|up_6|NZ_CP020922.1_2711935_2714170_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|119aa|up_5|NZ_CP020922.1_2714253_2714610_+	COG3609, COG3609, Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]	NA|99aa|up_4|NZ_CP020922.1_2714575_2714872_+	COG3668, ParE, Plasmid stabilization system protein [General function prediction only]	NA|267aa|up_3|NZ_CP020922.1_2715639_2716440_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP020922.1_2716667_2718305_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP020922.1_2718387_2719686_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP020922.1_2719821_2720493_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|266aa|down_0|NZ_CP020922.1_2721220_2722018_+	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]	NA|121aa|down_1|NZ_CP020922.1_2722105_2722468_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_2|NZ_CP020922.1_2722891_2724691_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_3|NZ_CP020922.1_2724690_2726403_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_4|NZ_CP020922.1_2726478_2727213_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_5|NZ_CP020922.1_2727300_2728254_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|down_6|NZ_CP020922.1_2728698_2731362_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|down_7|NZ_CP020922.1_2731373_2732930_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|down_8|NZ_CP020922.1_2732926_2733487_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|down_9|NZ_CP020922.1_2733500_2734559_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI
GCF_002163995.1_ASM216399v1	NZ_CP020922	Salmonella enterica subsp. enterica strain 16A242 chromosome, complete genome	3	2737255-2738425	2,3,2,4,3	PILER-CR,CRISPRCasFinder,CRT,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29,29,29	0	0	NA	NA	I-E:I-E:I-E:I-E:I-E	18,17,17,17,17	18	TypeI-E	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	NA,NA	NA|245aa|up_9|NZ_CP020922.1_2726478_2727213_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP020922.1_2727300_2728254_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP020922.1_2728698_2731362_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|up_6|NZ_CP020922.1_2731373_2732930_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP020922.1_2732926_2733487_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP020922.1_2733500_2734559_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP020922.1_2734569_2735316_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP020922.1_2735297_2735948_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP020922.1_2735944_2736865_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP020922.1_2736864_2737158_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP020922.1_2738439_2739486_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP020922.1_2739736_2740645_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP020922.1_2740654_2742094_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP020922.1_2742080_2742686_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|104aa|down_4|NZ_CP020922.1_2743251_2743563_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_5|NZ_CP020922.1_2743581_2744292_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_6|NZ_CP020922.1_2744291_2744771_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_7|NZ_CP020922.1_2744767_2745817_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_8|NZ_CP020922.1_2745797_2746559_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional	NA|209aa|down_9|NZ_CP020922.1_2746552_2747179_+	PRK00312, pcm, protein-L-isoaspartate(D-aspartate) O-methyltransferase
GCF_002163995.1_ASM216399v1	NZ_CP020922	Salmonella enterica subsp. enterica strain 16A242 chromosome, complete genome	4	2929358-2929467	5	CRISPRCasFinder	no		DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	Orphan	TGTCCCACCCTGTACCACTTTTTTTTAA	28	0	0	NA	NA	NA	1	1	Orphan	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	NA,NA|276aa|down_2|NZ_CP020922.1_2932255_2933083_+,NA|198aa|down_3|NZ_CP020922.1_2934999_2935593_-	NA|188aa|up_9|NZ_CP020922.1_2920140_2920704_+	TIGR03127, RuMP_HxlB, 6-phospho 3-hexuloisomerase	NA|212aa|up_8|NZ_CP020922.1_2920727_2921363_+	TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase	NA|401aa|up_7|NZ_CP020922.1_2921436_2922639_-	pfam13020, DUF3883, Domain of unknown function (DUF3883)	NA|338aa|up_6|NZ_CP020922.1_2922933_2923947_-	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only]	NA|327aa|up_5|NZ_CP020922.1_2923957_2924938_-	COG3732, SrlE, Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]	NA|125aa|up_4|NZ_CP020922.1_2924934_2925309_-	COG3731, SrlB, Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]	NA|174aa|up_3|NZ_CP020922.1_2925305_2925827_-	COG3730, SrlA, Phosphotransferase system sorbitol-specific component IIC [Carbohydrate transport and metabolism]	NA|95aa|up_2|NZ_CP020922.1_2925939_2926224_-	COG3423, Nlp, Predicted transcriptional regulator [Transcription]	NA|119aa|up_1|NZ_CP020922.1_2926318_2926675_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|273aa|up_0|NZ_CP020922.1_2926828_2927647_-	pfam14491, DUF4435, Protein of unknown function (DUF4435)	NA|690aa|down_0|NZ_CP020922.1_2929484_2931554_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|72aa|down_1|NZ_CP020922.1_2931589_2931805_-	COG3311, AlpA, Predicted transcriptional regulator [Transcription]	NA|276aa|down_2|NZ_CP020922.1_2932255_2933083_+	NA	NA|198aa|down_3|NZ_CP020922.1_2934999_2935593_-	NA	NA|388aa|down_4|NZ_CP020922.1_2937485_2938649_-	TIGR01843, Hemolysin_secretion_protein_D_plasmid, type I secretion membrane fusion protein, HlyD family	NA|727aa|down_5|NZ_CP020922.1_2938656_2940837_-	TIGR03375, type_I_sec_LssB, type I secretion system ATPase, LssB family	NA|470aa|down_6|NZ_CP020922.1_2940833_2942243_-	TIGR01844, Proteases_secretion_protein_PrtF, type I secretion outer membrane protein, TolC family	NA|3825aa|down_7|NZ_CP020922.1_2942307_2953782_-	pfam17936, Big_6, Bacterial Ig domain	NA|161aa|down_8|NZ_CP020922.1_2954395_2954878_-	PRK05422, smpB, SsrA-binding protein SmpB	NA|159aa|down_9|NZ_CP020922.1_2955027_2955504_+	PRK10724, PRK10724, type II toxin-antitoxin system RatA family toxin
GCF_002163995.1_ASM216399v1	NZ_CP020924	Salmonella enterica subsp. enterica strain 16A242 plasmid unnamed2, complete sequence	1	30569-30677	1	CRISPRCasFinder	no			Orphan	ACCATAAATCTGTCCCTCTTTGACCATAAAT	31	0	0	NA	NA	NA	1	1	Orphan	DinG,WYL,DEDDh,RT,cas3,PD-DExK,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,cas14j	NA|98aa|up_7|NZ_CP020924.1_24891_25185_-,NA|78aa|up_3|NZ_CP020924.1_27772_28006_+,NA|108aa|down_0|NZ_CP020924.1_31929_32253_+,NA|75aa|down_1|NZ_CP020924.1_32293_32518_+,NA|89aa|down_3|NZ_CP020924.1_32888_33155_+,NA|108aa|down_5|NZ_CP020924.1_33829_34153_+,NA|75aa|down_6|NZ_CP020924.1_34192_34417_+,NA|89aa|down_8|NZ_CP020924.1_34787_35054_+	NA|791aa|up_9|NZ_CP020924.1_22138_24511_-	TIGR00929, CAG_pathogenicity_island_protein_23, type IV secretion/conjugal transfer ATPase, VirB4 family	NA|107aa|up_8|NZ_CP020924.1_24513_24834_-	COG3702, VirB3, Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]	NA|98aa|up_7|NZ_CP020924.1_24891_25185_-	NA	NA|204aa|up_6|NZ_CP020924.1_25177_25789_-	cd16892, LT_VirB1-like, VirB1-like subfamily	NA|332aa|up_5|NZ_CP020924.1_26121_27117_+	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein	NA|214aa|up_4|NZ_CP020924.1_27118_27760_+	pfam07996, T4SS, Type IV secretion system proteins	NA|78aa|up_3|NZ_CP020924.1_27772_28006_+	NA	NA|96aa|up_2|NZ_CP020924.1_28046_28334_-	COG2771, CsgD, DNA-binding HTH domain-containing proteins [Transcription]	NA|113aa|up_1|NZ_CP020924.1_28532_28871_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|335aa|up_0|NZ_CP020924.1_29244_30249_-	pfam01051, Rep_3, Initiator Replication protein	NA|108aa|down_0|NZ_CP020924.1_31929_32253_+	NA	NA|75aa|down_1|NZ_CP020924.1_32293_32518_+	NA	NA|75aa|down_2|NZ_CP020924.1_32613_32838_+	cd04702, ASRGL1_like, Metazoan L-Asparaginase type 2	NA|89aa|down_3|NZ_CP020924.1_32888_33155_+	NA	NA|81aa|down_4|NZ_CP020924.1_33144_33387_+	pfam15731, MqsA_antitoxin, Antitoxin component of bacterial toxin-antitoxin system, MqsA	NA|108aa|down_5|NZ_CP020924.1_33829_34153_+	NA	NA|75aa|down_6|NZ_CP020924.1_34192_34417_+	NA	NA|75aa|down_7|NZ_CP020924.1_34512_34737_+	cd04702, ASRGL1_like, Metazoan L-Asparaginase type 2	NA|89aa|down_8|NZ_CP020924.1_34787_35054_+	NA	NA|81aa|down_9|NZ_CP020924.1_35043_35286_+	pfam15731, MqsA_antitoxin, Antitoxin component of bacterial toxin-antitoxin system, MqsA
