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_006384995.1_ASM638499v1	NZ_CP029840	Salmonella enterica subsp. enterica serovar Typhimurium strain 01ST04081 chromosome, complete genome	1	2894250-2894359	1	CRISPRCasFinder	no		DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	Orphan	TTAAAAAAAGGTGGTACAGGGTGGGACA	28	0	0	NA	NA	NA	1	1	Orphan	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	NA|76aa|up_9|NZ_CP029840.1_2883446_2883674_+,NA|198aa|up_4|NZ_CP029840.1_2888122_2888716_+,NA|276aa|up_2|NZ_CP029840.1_2890633_2891461_-,NA	NA|76aa|up_9|NZ_CP029840.1_2883446_2883674_+	NA	NA|107aa|up_8|NZ_CP029840.1_2883670_2883991_+	pfam17345, DUF5375, Family of unknown function (DUF5375)	NA|778aa|up_7|NZ_CP029840.1_2884005_2886339_+	COG3378, COG3378, Phage associated DNA primase [General function prediction only]	NA|355aa|up_6|NZ_CP029840.1_2886830_2887895_+	PRK09692, PRK09692, integrase; Provisional	NA|56aa|up_5|NZ_CP029840.1_2887908_2888076_+	PRK09692, PRK09692, integrase; Provisional	NA|198aa|up_4|NZ_CP029840.1_2888122_2888716_+	NA	NA|398aa|up_3|NZ_CP029840.1_2889105_2890299_+	pfam02810, SEC-C, SEC-C motif	NA|276aa|up_2|NZ_CP029840.1_2890633_2891461_-	NA	NA|72aa|up_1|NZ_CP029840.1_2891911_2892127_+	COG3311, AlpA, Predicted transcriptional regulator [Transcription]	NA|690aa|up_0|NZ_CP029840.1_2892162_2894232_+	COG5519, COG5519, Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]	NA|428aa|down_0|NZ_CP029840.1_2894734_2896018_+	COG3950, COG3950, Predicted ATP-binding protein involved in virulence [General function prediction only]	NA|273aa|down_1|NZ_CP029840.1_2896062_2896881_+	pfam14491, DUF4435, Protein of unknown function (DUF4435)	NA|119aa|down_2|NZ_CP029840.1_2897034_2897391_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|95aa|down_3|NZ_CP029840.1_2897485_2897770_+	COG3423, Nlp, Predicted transcriptional regulator [Transcription]	NA|174aa|down_4|NZ_CP029840.1_2897882_2898404_+	COG3730, SrlA, Phosphotransferase system sorbitol-specific component IIC [Carbohydrate transport and metabolism]	NA|125aa|down_5|NZ_CP029840.1_2898400_2898775_+	COG3731, SrlB, Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]	NA|327aa|down_6|NZ_CP029840.1_2898771_2899752_+	COG3732, SrlE, Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]	NA|338aa|down_7|NZ_CP029840.1_2899762_2900776_+	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only]	NA|401aa|down_8|NZ_CP029840.1_2901070_2902273_+	pfam13020, DUF3883, Domain of unknown function (DUF3883)	NA|212aa|down_9|NZ_CP029840.1_2902346_2902982_-	TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase
GCF_006384995.1_ASM638499v1	NZ_CP029840	Salmonella enterica subsp. enterica serovar Typhimurium strain 01ST04081 chromosome, complete genome	2	3087845-3088770	2,1,1,2,3	CRISPRCasFinder,CRT,PILER-CR,CRT,CRISPRCasFinder	no	cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	Type I-E	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC	29,29,29,29,29	0	0	NA	NA	I-E:I-E:I-E:I-E:I-E	13,14,14,14,13	14	TypeI-E	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	NA,NA	NA|254aa|up_9|NZ_CP029840.1_3079711_3080473_-	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional	NA|350aa|up_8|NZ_CP029840.1_3080453_3081503_-	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|160aa|up_7|NZ_CP029840.1_3081499_3081979_-	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|237aa|up_6|NZ_CP029840.1_3081978_3082689_-	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|104aa|up_5|NZ_CP029840.1_3082707_3083019_-	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|119aa|up_4|NZ_CP029840.1_3083209_3083566_-	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|202aa|up_3|NZ_CP029840.1_3083583_3084189_-	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|480aa|up_2|NZ_CP029840.1_3084175_3085615_-	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|303aa|up_1|NZ_CP029840.1_3085624_3086533_-	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|349aa|up_0|NZ_CP029840.1_3086783_3087830_+	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	cas2|98aa|down_0|NZ_CP029840.1_3088866_3089160_-	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	cas1|307aa|down_1|NZ_CP029840.1_3089159_3090080_-	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas6e|217aa|down_2|NZ_CP029840.1_3090076_3090727_-	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI	cas5|249aa|down_3|NZ_CP029840.1_3090708_3091455_-	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|353aa|down_4|NZ_CP029840.1_3091465_3092524_-	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cse2gr11|187aa|down_5|NZ_CP029840.1_3092537_3093098_-	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas8e|519aa|down_6|NZ_CP029840.1_3093094_3094651_-	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cas3|888aa|down_7|NZ_CP029840.1_3094662_3097326_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	NA|318aa|down_8|NZ_CP029840.1_3097770_3098724_+	PRK15379, PRK15379, type III secretion system effector SopD	NA|245aa|down_9|NZ_CP029840.1_3098811_3099546_-	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase
GCF_006384995.1_ASM638499v1	NZ_CP029840	Salmonella enterica subsp. enterica serovar Typhimurium strain 01ST04081 chromosome, complete genome	3	3104902-3106212	4,3,2	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	Type I-E	CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC,CGGTTTATCCCCGCTGGCGCGGGGAACAC	29,29,29	0	0	NA	NA	I-E:I-E:I-E	21,21,20	21	TypeI-E	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	NA,NA	cas7|353aa|up_9|NZ_CP029840.1_3091465_3092524_-	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI	cse2gr11|187aa|up_8|NZ_CP029840.1_3092537_3093098_-	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2	cas8e|519aa|up_7|NZ_CP029840.1_3093094_3094651_-	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cas3|888aa|up_6|NZ_CP029840.1_3094662_3097326_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	NA|318aa|up_5|NZ_CP029840.1_3097770_3098724_+	PRK15379, PRK15379, type III secretion system effector SopD	NA|245aa|up_4|NZ_CP029840.1_3098811_3099546_-	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|571aa|up_3|NZ_CP029840.1_3099621_3101334_-	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|600aa|up_2|NZ_CP029840.1_3101333_3103133_-	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|121aa|up_1|NZ_CP029840.1_3103556_3103919_+	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|266aa|up_0|NZ_CP029840.1_3104006_3104804_-	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]	NA|224aa|down_0|NZ_CP029840.1_3106508_3107180_-	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|433aa|down_1|NZ_CP029840.1_3107315_3108614_-	PRK00077, eno, enolase; Provisional	NA|546aa|down_2|NZ_CP029840.1_3108696_3110334_-	PRK05380, pyrG, CTP synthetase; Validated	NA|267aa|down_3|NZ_CP029840.1_3110561_3111362_-	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|99aa|down_4|NZ_CP029840.1_3112129_3112426_-	COG3668, ParE, Plasmid stabilization system protein [General function prediction only]	NA|119aa|down_5|NZ_CP029840.1_3112391_3112748_-	COG3609, COG3609, Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]	NA|745aa|down_6|NZ_CP029840.1_3112831_3115066_-	PRK10872, relA, (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional	NA|432aa|down_7|NZ_CP029840.1_3115117_3116413_-	PRK13168, rumA, 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	NA|421aa|down_8|NZ_CP029840.1_3117042_3118305_+	pfam13701, DDE_Tnp_1_4, Transposase DDE domain group 1	NA|214aa|down_9|NZ_CP029840.1_3118544_3119186_+	cd07709, flavodiiron_proteins_MBL-fold, catalytic domain of flavodiiron proteins (FDPs) and related proteins; MBL-fold metallo-hydrolase domain
GCF_006384995.1_ASM638499v1	NZ_CP029841	Salmonella enterica subsp. enterica serovar Typhimurium strain 01ST04081 plasmid p01ST04081A, complete sequence	1	98391-98510	1	CRISPRCasFinder	no		csa3,cas14j	Orphan	TGCGTACCCATCCACCTTTCAGTGCGTACCCATCCACCTTTCA	43	0	0	NA	NA	NA	1	1	Orphan	DEDDh,WYL,DinG,cas3,cas14j,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK,RT	NA|55aa|up_8|NZ_CP029841.1_94245_94410_+,NA|60aa|up_7|NZ_CP029841.1_94414_94594_+,NA|75aa|up_6|NZ_CP029841.1_94596_94821_+,NA|142aa|up_4|NZ_CP029841.1_95492_95918_-,NA|148aa|up_3|NZ_CP029841.1_95988_96432_-,NA|77aa|up_0|NZ_CP029841.1_98076_98307_+,NA|108aa|down_2|NZ_CP029841.1_100038_100362_+,NA|82aa|down_3|NZ_CP029841.1_100409_100655_+,NA|110aa|down_5|NZ_CP029841.1_100952_101282_+,NA|60aa|down_6|NZ_CP029841.1_101324_101504_+,NA|91aa|down_7|NZ_CP029841.1_101735_102008_+,NA|182aa|down_8|NZ_CP029841.1_102333_102879_+	NA|77aa|up_9|NZ_CP029841.1_93852_94083_+	pfam09274, ParG, ParG	NA|55aa|up_8|NZ_CP029841.1_94245_94410_+	NA	NA|60aa|up_7|NZ_CP029841.1_94414_94594_+	NA	NA|75aa|up_6|NZ_CP029841.1_94596_94821_+	NA	NA|199aa|up_5|NZ_CP029841.1_94844_95441_+	pfam14317, YcxB, YcxB-like protein	NA|142aa|up_4|NZ_CP029841.1_95492_95918_-	NA	NA|148aa|up_3|NZ_CP029841.1_95988_96432_-	NA	NA|281aa|up_2|NZ_CP029841.1_96435_97278_-	pfam01051, Rep_3, Initiator Replication protein	NA|280aa|up_1|NZ_CP029841.1_97298_98138_-	pfam01051, Rep_3, Initiator Replication protein	NA|77aa|up_0|NZ_CP029841.1_98076_98307_+	NA	NA|84aa|down_0|NZ_CP029841.1_99370_99622_+	PRK02854, PRK02854, primosomal protein DnaT	NA|94aa|down_1|NZ_CP029841.1_99611_99893_+	COG2026, RelE, Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]	NA|108aa|down_2|NZ_CP029841.1_100038_100362_+	NA	NA|82aa|down_3|NZ_CP029841.1_100409_100655_+	NA	NA|72aa|down_4|NZ_CP029841.1_100644_100860_+	TIGR03830, transcriptional_regulator_XRE_family, putative zinc finger/helix-turn-helix protein, YgiT family	NA|110aa|down_5|NZ_CP029841.1_100952_101282_+	NA	NA|60aa|down_6|NZ_CP029841.1_101324_101504_+	NA	NA|91aa|down_7|NZ_CP029841.1_101735_102008_+	NA	NA|182aa|down_8|NZ_CP029841.1_102333_102879_+	NA	NA|389aa|down_9|NZ_CP029841.1_102881_104048_+	pfam03432, Relaxase, Relaxase/Mobilisation nuclease domain
