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_000486365.2_ASM48636v2	NZ_CP011396	Salmonella enterica subsp. enterica serovar Thompson str. ATCC 8391 isolate CFSAN000736 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_CP011396.1_84749_84842_+,NA|160aa|up_4|NZ_CP011396.1_85042_85522_+,NA|38aa|up_2|NZ_CP011396.1_87048_87162_+,NA|155aa|up_0|NZ_CP011396.1_88082_88547_+,NA	NA|314aa|up_9|NZ_CP011396.1_78694_79636_+	PRK09956, PRK09956, ISNCY family transposase	NA|301aa|up_8|NZ_CP011396.1_79678_80581_-	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|232aa|up_7|NZ_CP011396.1_81086_81782_+	PRK15385, PRK15385, MgtC family protein	NA|909aa|up_6|NZ_CP011396.1_82001_84728_+	PRK15122, PRK15122, magnesium-transporting ATPase; Provisional	NA|31aa|up_5|NZ_CP011396.1_84749_84842_+	NA	NA|160aa|up_4|NZ_CP011396.1_85042_85522_+	NA	NA|227aa|up_3|NZ_CP011396.1_85750_86431_-	cd01012, YcaC_related, YcaC related amidohydrolases; E	NA|38aa|up_2|NZ_CP011396.1_87048_87162_+	NA	NA|286aa|up_1|NZ_CP011396.1_87214_88072_+	COG3710, CadC, DNA-binding winged-HTH domains [Transcription]	NA|155aa|up_0|NZ_CP011396.1_88082_88547_+	NA	NA|206aa|down_0|NZ_CP011396.1_91568_92186_-	COG2771, CsgD, DNA-binding HTH domain-containing proteins [Transcription]	NA|461aa|down_1|NZ_CP011396.1_94190_95573_+	PRK11462, PRK11462, putative transporter; Provisional	NA|773aa|down_2|NZ_CP011396.1_95584_97903_+	PRK10658, PRK10658, putative alpha-glucosidase; Provisional	NA|570aa|down_3|NZ_CP011396.1_98005_99715_-	pfam05170, AsmA, AsmA family	NA|464aa|down_4|NZ_CP011396.1_99835_101227_-	TIGR00801, Uric_acid_permease, uracil-xanthine permease	NA|402aa|down_5|NZ_CP011396.1_101454_102660_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	cas3|694aa|down_6|NZ_CP011396.1_102695_104777_-	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	NA|230aa|down_7|NZ_CP011396.1_104782_105472_-	PRK11081, PRK11081, tRNA guanosine-2'-O-methyltransferase; Provisional	NA|704aa|down_8|NZ_CP011396.1_105476_107588_-	PRK11092, PRK11092, bifunctional GTP diphosphokinase/guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase	NA|92aa|down_9|NZ_CP011396.1_107606_107882_-	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit
GCF_000486365.2_ASM48636v2	NZ_CP011396	Salmonella enterica subsp. enterica serovar Thompson str. ATCC 8391 isolate CFSAN000736 chromosome, complete genome	2	952920-954107	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_CP011396.1_941467_942004_-	PRK15260, PRK15260, fimbrial protein SteF; Provisional	NA|157aa|up_8|NZ_CP011396.1_942000_942471_-	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional	NA|169aa|up_7|NZ_CP011396.1_942485_942992_-	PRK15275, PRK15275, putative fimbrial protein SteD; Provisional	NA|258aa|up_6|NZ_CP011396.1_943011_943785_-	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional	NA|900aa|up_5|NZ_CP011396.1_943797_946497_-	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein	NA|196aa|up_4|NZ_CP011396.1_946576_947164_-	PRK15261, PRK15261, fimbrial protein SteA; Provisional	NA|267aa|up_3|NZ_CP011396.1_947769_948570_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP011396.1_948797_950435_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP011396.1_950517_951816_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP011396.1_951951_952623_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|121aa|down_0|NZ_CP011396.1_955090_955453_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_1|NZ_CP011396.1_955887_957687_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_2|NZ_CP011396.1_957686_959399_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_3|NZ_CP011396.1_959500_960235_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_4|NZ_CP011396.1_960322_961276_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|down_5|NZ_CP011396.1_961720_964384_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|down_6|NZ_CP011396.1_964395_965952_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|down_7|NZ_CP011396.1_965948_966509_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|down_8|NZ_CP011396.1_966522_967581_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|down_9|NZ_CP011396.1_967591_968338_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5
GCF_000486365.2_ASM48636v2	NZ_CP011396	Salmonella enterica subsp. enterica serovar Thompson str. ATCC 8391 isolate CFSAN000736 chromosome, complete genome	3	970277-971955	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_CP011396.1_959500_960235_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP011396.1_960322_961276_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|888aa|up_7|NZ_CP011396.1_961720_964384_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas8e|519aa|up_6|NZ_CP011396.1_964395_965952_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|187aa|up_5|NZ_CP011396.1_965948_966509_+	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas7|353aa|up_4|NZ_CP011396.1_966522_967581_+	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cas5|249aa|up_3|NZ_CP011396.1_967591_968338_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|217aa|up_2|NZ_CP011396.1_968319_968970_+	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas1|307aa|up_1|NZ_CP011396.1_968966_969887_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP011396.1_969886_970180_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP011396.1_971969_973016_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP011396.1_973266_974175_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP011396.1_974184_975624_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP011396.1_975610_976216_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|119aa|down_4|NZ_CP011396.1_976233_976590_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP011396.1_976780_977092_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP011396.1_977110_977821_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP011396.1_977820_978300_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP011396.1_978296_979346_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP011396.1_979326_980088_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_000486365.2_ASM48636v2	NZ_CP011396	Salmonella enterica subsp. enterica serovar Thompson str. ATCC 8391 isolate CFSAN000736 chromosome, complete genome	4	2864319-2864447	4	CRISPRCasFinder	no		cas3,PD-DExK,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DEDDh,DinG	Orphan	AGCGAGTCAATCCCCCCCTCACCGCCATATTCAAG	35	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_CP011396.1_2860393_2860777_+,NA	NA|165aa|up_9|NZ_CP011396.1_2854032_2854527_-	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|323aa|up_8|NZ_CP011396.1_2855073_2856042_+	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|589aa|up_7|NZ_CP011396.1_2856155_2857922_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_6|NZ_CP011396.1_2857922_2859644_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_5|NZ_CP011396.1_2859688_2860393_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|128aa|up_4|NZ_CP011396.1_2860393_2860777_+	NA	NA|73aa|up_3|NZ_CP011396.1_2860704_2860923_+	PRK00276, infA, translation initiation factor IF-1; Validated	NA|304aa|up_2|NZ_CP011396.1_2861013_2861925_-	PRK14997, PRK14997, LysR family transcriptional regulator; Provisional	NA|287aa|up_1|NZ_CP011396.1_2862033_2862894_+	COG1741, COG1741, Pirin-related protein [General function prediction only]	NA|226aa|up_0|NZ_CP011396.1_2862913_2863591_+	cd01012, YcaC_related, YcaC related amidohydrolases; E	NA|759aa|down_0|NZ_CP011396.1_2865144_2867421_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_1|NZ_CP011396.1_2867451_2867772_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|74aa|down_2|NZ_CP011396.1_2868095_2868317_+	PRK14998, PRK14998, cold shock-like protein CspD; Provisional	NA|649aa|down_3|NZ_CP011396.1_2868446_2870393_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|373aa|down_4|NZ_CP011396.1_2870389_2871508_-	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional	NA|317aa|down_5|NZ_CP011396.1_2871653_2872604_+	COG2990, VirK, Uncharacterized protein conserved in bacteria [Function unknown]	NA|553aa|down_6|NZ_CP011396.1_2872600_2874259_-	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]	NA|300aa|down_7|NZ_CP011396.1_2874460_2875360_+	COG2431, COG2431, Predicted membrane protein [Function unknown]	NA|551aa|down_8|NZ_CP011396.1_2875503_2877156_+	PRK05290, PRK05290, hybrid cluster protein; Provisional	NA|323aa|down_9|NZ_CP011396.1_2877167_2878136_+	PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional
