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_001953015.1_ASM195301v1	NZ_CP019196	Salmonella enterica subsp. enterica serovar Thompson strain ATCC BAA-1738 chromosome, complete genome	1	89672-89766	1	CRISPRCasFinder	no	cas3	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Unclear	ACCGGGTCTACTGGCTCAGGGTCTAC	26	0	0	NA	NA	NA	1	1	Unclear	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA|31aa|up_5|NZ_CP019196.1_84749_84842_+,NA|160aa|up_4|NZ_CP019196.1_85042_85522_+,NA|38aa|up_2|NZ_CP019196.1_87048_87162_+,NA|155aa|up_0|NZ_CP019196.1_88082_88547_+,NA	NA|314aa|up_9|NZ_CP019196.1_78694_79636_+	PRK09956, PRK09956, ISNCY family transposase	NA|301aa|up_8|NZ_CP019196.1_79678_80581_-	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|232aa|up_7|NZ_CP019196.1_81086_81782_+	PRK15385, PRK15385, MgtC family protein	NA|909aa|up_6|NZ_CP019196.1_82001_84728_+	PRK15122, PRK15122, magnesium-transporting ATPase; Provisional	NA|31aa|up_5|NZ_CP019196.1_84749_84842_+	NA	NA|160aa|up_4|NZ_CP019196.1_85042_85522_+	NA	NA|227aa|up_3|NZ_CP019196.1_85750_86431_-	cd01012, YcaC_related, YcaC related amidohydrolases; E	NA|38aa|up_2|NZ_CP019196.1_87048_87162_+	NA	NA|286aa|up_1|NZ_CP019196.1_87214_88072_+	COG3710, CadC, DNA-binding winged-HTH domains [Transcription]	NA|155aa|up_0|NZ_CP019196.1_88082_88547_+	NA	NA|206aa|down_0|NZ_CP019196.1_91568_92186_-	COG2771, CsgD, DNA-binding HTH domain-containing proteins [Transcription]	NA|461aa|down_1|NZ_CP019196.1_94190_95573_+	PRK11462, PRK11462, putative transporter; Provisional	NA|773aa|down_2|NZ_CP019196.1_95584_97903_+	PRK10658, PRK10658, putative alpha-glucosidase; Provisional	NA|570aa|down_3|NZ_CP019196.1_98005_99715_-	pfam05170, AsmA, AsmA family	NA|464aa|down_4|NZ_CP019196.1_99835_101227_-	TIGR00801, Uric_acid_permease, uracil-xanthine permease	NA|402aa|down_5|NZ_CP019196.1_101454_102660_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	cas3|694aa|down_6|NZ_CP019196.1_102695_104777_-	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	NA|230aa|down_7|NZ_CP019196.1_104782_105472_-	PRK11081, PRK11081, tRNA guanosine-2'-O-methyltransferase; Provisional	NA|704aa|down_8|NZ_CP019196.1_105476_107588_-	PRK11092, PRK11092, bifunctional GTP diphosphokinase/guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase	NA|92aa|down_9|NZ_CP019196.1_107606_107882_-	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit
GCF_001953015.1_ASM195301v1	NZ_CP019196	Salmonella enterica subsp. enterica serovar Thompson strain ATCC BAA-1738 chromosome, complete genome	2	952999-954186	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	18,19,19	19	TypeI-E	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA	NA|179aa|up_9|NZ_CP019196.1_941546_942083_-	PRK15260, PRK15260, fimbrial protein SteF; Provisional	NA|157aa|up_8|NZ_CP019196.1_942079_942550_-	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional	NA|169aa|up_7|NZ_CP019196.1_942564_943071_-	PRK15275, PRK15275, putative fimbrial protein SteD; Provisional	NA|258aa|up_6|NZ_CP019196.1_943090_943864_-	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional	NA|900aa|up_5|NZ_CP019196.1_943876_946576_-	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein	NA|196aa|up_4|NZ_CP019196.1_946655_947243_-	PRK15261, PRK15261, fimbrial protein SteA; Provisional	NA|267aa|up_3|NZ_CP019196.1_947848_948649_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP019196.1_948876_950514_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP019196.1_950596_951895_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP019196.1_952030_952702_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|121aa|down_0|NZ_CP019196.1_955169_955532_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_1|NZ_CP019196.1_955966_957766_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_2|NZ_CP019196.1_957765_959478_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_3|NZ_CP019196.1_959579_960314_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_4|NZ_CP019196.1_960401_961355_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|down_5|NZ_CP019196.1_961799_964463_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|down_6|NZ_CP019196.1_964474_966031_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|down_7|NZ_CP019196.1_966027_966588_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|down_8|NZ_CP019196.1_966601_967660_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|down_9|NZ_CP019196.1_967670_968417_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5
GCF_001953015.1_ASM195301v1	NZ_CP019196	Salmonella enterica subsp. enterica serovar Thompson strain ATCC BAA-1738 chromosome, complete genome	3	970356-972034	2,3,2	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	26,27,27	27	TypeI-E	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA,NA	NA|245aa|up_9|NZ_CP019196.1_959579_960314_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP019196.1_960401_961355_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP019196.1_961799_964463_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|up_6|NZ_CP019196.1_964474_966031_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP019196.1_966027_966588_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP019196.1_966601_967660_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP019196.1_967670_968417_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP019196.1_968398_969049_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP019196.1_969045_969966_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP019196.1_969965_970259_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP019196.1_972048_973095_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP019196.1_973345_974254_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP019196.1_974263_975703_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP019196.1_975689_976295_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|119aa|down_4|NZ_CP019196.1_976312_976669_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP019196.1_976859_977171_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP019196.1_977189_977900_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP019196.1_977899_978379_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP019196.1_978375_979425_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP019196.1_979405_980167_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_001953015.1_ASM195301v1	NZ_CP019196	Salmonella enterica subsp. enterica serovar Thompson strain ATCC BAA-1738 chromosome, complete genome	4	2915414-2915541	4	CRISPRCasFinder	no		cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Orphan	AGCGAGTCAATCCCCCCTCACCGCCATATTCAAG	34	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	NA|128aa|up_4|NZ_CP019196.1_2911489_2911873_+,NA	NA|165aa|up_9|NZ_CP019196.1_2905128_2905623_-	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|323aa|up_8|NZ_CP019196.1_2906169_2907138_+	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|589aa|up_7|NZ_CP019196.1_2907251_2909018_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_6|NZ_CP019196.1_2909018_2910740_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_5|NZ_CP019196.1_2910784_2911489_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|128aa|up_4|NZ_CP019196.1_2911489_2911873_+	NA	NA|73aa|up_3|NZ_CP019196.1_2911800_2912019_+	PRK00276, infA, translation initiation factor IF-1; Validated	NA|304aa|up_2|NZ_CP019196.1_2912109_2913021_-	PRK14997, PRK14997, LysR family transcriptional regulator; Provisional	NA|287aa|up_1|NZ_CP019196.1_2913129_2913990_+	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|226aa|up_0|NZ_CP019196.1_2914009_2914687_+	cd01012, YcaC_related, YcaC related amidohydrolases; E	NA|759aa|down_0|NZ_CP019196.1_2916237_2918514_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_1|NZ_CP019196.1_2918544_2918865_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|74aa|down_2|NZ_CP019196.1_2919188_2919410_+	PRK14998, PRK14998, cold shock-like protein CspD; Provisional	NA|649aa|down_3|NZ_CP019196.1_2919539_2921486_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|373aa|down_4|NZ_CP019196.1_2921482_2922601_-	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional	NA|317aa|down_5|NZ_CP019196.1_2922746_2923697_+	COG2990, VirK, Uncharacterized protein conserved in bacteria [Function unknown]	NA|553aa|down_6|NZ_CP019196.1_2923693_2925352_-	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]	NA|300aa|down_7|NZ_CP019196.1_2925553_2926453_+	COG2431, COG2431, Predicted membrane protein [Function unknown]	NA|551aa|down_8|NZ_CP019196.1_2926596_2928249_+	PRK05290, PRK05290, hybrid cluster protein; Provisional	NA|323aa|down_9|NZ_CP019196.1_2928260_2929229_+	PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional
