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_001952995.1_ASM195299v1	NZ_CP019172	Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 chromosome, complete genome	1	597669-597769	1	CRISPRCasFinder	no		cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Orphan	GCTTCAGTGGCGAACGTCGTGAA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA|177aa|down_1|NZ_CP019172.1_599287_599818_-	NA|448aa|up_9|NZ_CP019172.1_583747_585091_-	PRK05370, PRK05370, argininosuccinate synthase; Validated	NA|151aa|up_8|NZ_CP019172.1_585718_586171_+	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed	NA|501aa|up_7|NZ_CP019172.1_586198_587701_+	PRK09202, nusA, transcription elongation factor NusA; Validated	NA|893aa|up_6|NZ_CP019172.1_587725_590404_+	PRK05306, infB, translation initiation factor IF-2; Validated	NA|134aa|up_5|NZ_CP019172.1_590624_591026_+	PRK00521, rbfA, 30S ribosome-binding factor RbfA	NA|315aa|up_4|NZ_CP019172.1_591025_591970_+	PRK05033, truB, tRNA pseudouridine synthase B; Provisional	NA|90aa|up_3|NZ_CP019172.1_592120_592390_+	PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	NA|712aa|up_2|NZ_CP019172.1_592631_594767_+	PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional	NA|295aa|up_1|NZ_CP019172.1_594876_595761_+	PRK11189, PRK11189, lipoprotein NlpI; Provisional	NA|27aa|up_0|NZ_CP019172.1_595866_595947_+	NF033440, small_YrbN, protein YrbN	NA|415aa|down_0|NZ_CP019172.1_597982_599227_+	PRK10483, PRK10483, tryptophan permease; Provisional	NA|177aa|down_1|NZ_CP019172.1_599287_599818_-	NA	NA|240aa|down_2|NZ_CP019172.1_599976_600696_+	COG3034, COG3034, Uncharacterized protein conserved in bacteria [Function unknown]	NA|336aa|down_3|NZ_CP019172.1_600673_601681_-	PRK10508, PRK10508, luciferase-like monooxygenase	NA|299aa|down_4|NZ_CP019172.1_601858_602755_-	PRK15447, PRK15447, putative protease; Provisional	NA|332aa|down_5|NZ_CP019172.1_602745_603741_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|175aa|down_6|NZ_CP019172.1_603957_604482_+	COG3154, COG3154, Putative lipid carrier protein [Lipid metabolism]	NA|168aa|down_7|NZ_CP019172.1_604475_604979_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|106aa|down_8|NZ_CP019172.1_604965_605283_-	PRK00329, PRK00329, GIY-YIG nuclease superfamily protein; Validated	NA|148aa|down_9|NZ_CP019172.1_605320_605764_+	PRK03467, PRK03467, hypothetical protein; Provisional
GCF_001952995.1_ASM195299v1	NZ_CP019172	Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 chromosome, complete genome	2	946615-947863	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	19,20,20	20	TypeI-E	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA	NA|381aa|up_9|NZ_CP019172.1_932413_933556_+	COG1929, COG1929, Glycerate kinase [Carbohydrate transport and metabolism]	NA|919aa|up_8|NZ_CP019172.1_933599_936356_-	PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional	NA|432aa|up_7|NZ_CP019172.1_936413_937709_+	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|745aa|up_6|NZ_CP019172.1_937760_939995_+	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|119aa|up_5|NZ_CP019172.1_940078_940435_+	COG3609, COG3609, Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]	NA|99aa|up_4|NZ_CP019172.1_940400_940697_+	COG3668, ParE, Plasmid stabilization system protein [General function prediction only]	NA|267aa|up_3|NZ_CP019172.1_941464_942265_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP019172.1_942492_944130_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP019172.1_944212_945511_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP019172.1_945646_946318_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|266aa|down_0|NZ_CP019172.1_947960_948758_+	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]	NA|121aa|down_1|NZ_CP019172.1_948845_949208_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_2|NZ_CP019172.1_949631_951431_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_3|NZ_CP019172.1_951430_953143_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_4|NZ_CP019172.1_953218_953953_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_5|NZ_CP019172.1_954165_955119_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|down_6|NZ_CP019172.1_955562_958226_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|520aa|down_7|NZ_CP019172.1_958237_959797_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|down_8|NZ_CP019172.1_959793_960354_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|down_9|NZ_CP019172.1_960367_961426_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI
GCF_001952995.1_ASM195299v1	NZ_CP019172	Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 chromosome, complete genome	3	964122-965066	3,2	CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29	0	0	NA	NA	I-E:I-E	15,15	15	TypeI-E	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA	NA|245aa|up_9|NZ_CP019172.1_953218_953953_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP019172.1_954165_955119_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP019172.1_955562_958226_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|520aa|up_6|NZ_CP019172.1_958237_959797_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP019172.1_959793_960354_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP019172.1_960367_961426_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP019172.1_961436_962183_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP019172.1_962164_962815_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP019172.1_962811_963732_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP019172.1_963731_964025_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP019172.1_965080_966127_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP019172.1_966377_967286_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP019172.1_967295_968735_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP019172.1_968721_969327_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP019172.1_969377_969701_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP019172.1_969891_970203_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP019172.1_970221_970932_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP019172.1_970931_971411_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP019172.1_971407_972457_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP019172.1_972437_973199_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_001952995.1_ASM195299v1	NZ_CP019172	Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 chromosome, complete genome	4	1155710-1155819	4	CRISPRCasFinder	no		cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Orphan	TGTCCCACCCTGTACCACTTTTTTTTAA	28	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA|276aa|down_2|NZ_CP019172.1_1158607_1159435_+,NA|198aa|down_4|NZ_CP019172.1_1161352_1161946_-	NA|212aa|up_9|NZ_CP019172.1_1147087_1147723_+	TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase	NA|401aa|up_8|NZ_CP019172.1_1147796_1148999_-	pfam13020, DUF3883, Domain of unknown function (DUF3883)	NA|338aa|up_7|NZ_CP019172.1_1149293_1150307_-	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only]	NA|327aa|up_6|NZ_CP019172.1_1150317_1151298_-	COG3732, SrlE, Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]	NA|125aa|up_5|NZ_CP019172.1_1151294_1151669_-	COG3731, SrlB, Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]	NA|174aa|up_4|NZ_CP019172.1_1151665_1152187_-	COG3730, SrlA, Phosphotransferase system sorbitol-specific component IIC [Carbohydrate transport and metabolism]	NA|95aa|up_3|NZ_CP019172.1_1152299_1152584_-	COG3423, Nlp, Predicted transcriptional regulator [Transcription]	NA|119aa|up_2|NZ_CP019172.1_1152678_1153035_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|273aa|up_1|NZ_CP019172.1_1153187_1154006_-	pfam14491, DUF4435, Protein of unknown function (DUF4435)	NA|428aa|up_0|NZ_CP019172.1_1154050_1155334_-	COG3950, COG3950, Predicted ATP-binding protein involved in virulence [General function prediction only]	NA|690aa|down_0|NZ_CP019172.1_1155836_1157906_-	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|72aa|down_1|NZ_CP019172.1_1157941_1158157_-	COG3311, AlpA, Predicted transcriptional regulator [Transcription]	NA|276aa|down_2|NZ_CP019172.1_1158607_1159435_+	NA	NA|398aa|down_3|NZ_CP019172.1_1159769_1160963_-	pfam02810, SEC-C, SEC-C motif	NA|198aa|down_4|NZ_CP019172.1_1161352_1161946_-	NA	NA|388aa|down_5|NZ_CP019172.1_1163838_1165002_-	TIGR01843, Hemolysin_secretion_protein_D_plasmid, type I secretion membrane fusion protein, HlyD family	NA|727aa|down_6|NZ_CP019172.1_1165009_1167190_-	TIGR03375, type_I_sec_LssB, type I secretion system ATPase, LssB family	NA|470aa|down_7|NZ_CP019172.1_1167186_1168596_-	TIGR01844, Proteases_secretion_protein_PrtF, type I secretion outer membrane protein, TolC family	NA|3825aa|down_8|NZ_CP019172.1_1168660_1180135_-	pfam17936, Big_6, Bacterial Ig domain	NA|161aa|down_9|NZ_CP019172.1_1180748_1181231_-	PRK05422, smpB, SsrA-binding protein SmpB
GCF_001952995.1_ASM195299v1	NZ_CP019172	Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 chromosome, complete genome	5	3577410-3577504	5	CRISPRCasFinder	no		cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Orphan	TGGACAATCGTTGGACACCCGTTGGACAA	29	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA|99aa|up_3|NZ_CP019172.1_3574743_3575040_-,NA|83aa|up_2|NZ_CP019172.1_3575042_3575291_-,NA|65aa|up_1|NZ_CP019172.1_3575302_3575497_-,NA|101aa|down_4|NZ_CP019172.1_3579815_3580118_+,NA|81aa|down_7|NZ_CP019172.1_3581159_3581402_+,NA|97aa|down_8|NZ_CP019172.1_3581433_3581724_+	NA|202aa|up_9|NZ_CP019172.1_3571817_3572423_-	pfam05766, NinG, Bacteriophage Lambda NinG protein	NA|68aa|up_8|NZ_CP019172.1_3572725_3572929_-	pfam05810, NinF, NinF protein	NA|134aa|up_7|NZ_CP019172.1_3572921_3573323_-	PRK13404, PRK13404, dihydropyrimidinase; Provisional	NA|59aa|up_6|NZ_CP019172.1_3573325_3573502_-	pfam05322, NinE, NINE Protein	NA|282aa|up_5|NZ_CP019172.1_3573498_3574344_-	cd01713, PAPS_reductase, This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase	NA|149aa|up_4|NZ_CP019172.1_3574340_3574787_-	pfam05772, NinB, NinB protein	NA|99aa|up_3|NZ_CP019172.1_3574743_3575040_-	NA	NA|83aa|up_2|NZ_CP019172.1_3575042_3575291_-	NA	NA|65aa|up_1|NZ_CP019172.1_3575302_3575497_-	NA	NA|479aa|up_0|NZ_CP019172.1_3575573_3577010_-	TIGR03600, phage_DnaB, phage replicative helicase, DnaB family, HK022 subfamily	NA|49aa|down_0|NZ_CP019172.1_3577891_3578038_-	pfam10872, DUF2740, Protein of unknown function (DUF2740)	NA|94aa|down_1|NZ_CP019172.1_3578072_3578354_-	pfam05269, Phage_CII, Bacteriophage CII protein	NA|72aa|down_2|NZ_CP019172.1_3578464_3578680_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|221aa|down_3|NZ_CP019172.1_3578798_3579461_+	COG1974, LexA, SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]	NA|101aa|down_4|NZ_CP019172.1_3579815_3580118_+	NA	NA|196aa|down_5|NZ_CP019172.1_3580130_3580718_-	pfam14163, SieB, Super-infection exclusion protein B	NA|67aa|down_6|NZ_CP019172.1_3580931_3581132_+	pfam11058, Ral, Antirestriction protein Ral	NA|81aa|down_7|NZ_CP019172.1_3581159_3581402_+	NA	NA|97aa|down_8|NZ_CP019172.1_3581433_3581724_+	NA	NA|51aa|down_9|NZ_CP019172.1_3582047_3582200_+	pfam02061, Lambda_CIII, Lambda Phage CIII
