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_012052445.1_ASM1205244v1	NZ_CP050757	Salmonella enterica subsp. enterica serovar Indiana strain SI173 chromosome, complete genome	1	608215-608315	1	CRISPRCasFinder	no		cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	Orphan	GCTTCAGTGGCGAGCGTCGTGAA	23	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	NA,NA|177aa|down_1|NZ_CP050757.1_609833_610364_-	NA|448aa|up_9|NZ_CP050757.1_594292_595636_-	PRK05370, PRK05370, argininosuccinate synthase; Validated	NA|151aa|up_8|NZ_CP050757.1_596263_596716_+	PRK00092, PRK00092, ribosome maturation protein RimP; Reviewed	NA|501aa|up_7|NZ_CP050757.1_596743_598246_+	PRK09202, nusA, transcription elongation factor NusA; Validated	NA|893aa|up_6|NZ_CP050757.1_598270_600949_+	PRK05306, infB, translation initiation factor IF-2; Validated	NA|134aa|up_5|NZ_CP050757.1_601170_601572_+	PRK00521, rbfA, 30S ribosome-binding factor RbfA	NA|315aa|up_4|NZ_CP050757.1_601571_602516_+	PRK05033, truB, tRNA pseudouridine synthase B; Provisional	NA|90aa|up_3|NZ_CP050757.1_602666_602936_+	PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	NA|712aa|up_2|NZ_CP050757.1_603177_605313_+	PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional	NA|295aa|up_1|NZ_CP050757.1_605422_606307_+	PRK11189, PRK11189, lipoprotein NlpI; Provisional	NA|27aa|up_0|NZ_CP050757.1_606412_606493_+	NF033440, small_YrbN, protein YrbN	NA|415aa|down_0|NZ_CP050757.1_608528_609773_+	PRK10483, PRK10483, tryptophan permease; Provisional	NA|177aa|down_1|NZ_CP050757.1_609833_610364_-	NA	NA|240aa|down_2|NZ_CP050757.1_610522_611242_+	COG3034, COG3034, Uncharacterized protein conserved in bacteria [Function unknown]	NA|336aa|down_3|NZ_CP050757.1_611219_612227_-	PRK10508, PRK10508, luciferase-like monooxygenase	NA|299aa|down_4|NZ_CP050757.1_612404_613301_-	PRK15447, PRK15447, putative protease; Provisional	NA|332aa|down_5|NZ_CP050757.1_613291_614287_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|175aa|down_6|NZ_CP050757.1_614503_615028_+	COG3154, COG3154, Putative lipid carrier protein [Lipid metabolism]	NA|168aa|down_7|NZ_CP050757.1_615021_615525_+	COG3153, COG3153, Predicted acetyltransferase [General function prediction only]	NA|106aa|down_8|NZ_CP050757.1_615511_615829_-	PRK00329, PRK00329, GIY-YIG nuclease superfamily protein; Validated	NA|148aa|down_9|NZ_CP050757.1_615866_616310_+	PRK03467, PRK03467, hypothetical protein; Provisional
GCF_012052445.1_ASM1205244v1	NZ_CP050757	Salmonella enterica subsp. enterica serovar Indiana strain SI173 chromosome, complete genome	2	980910-981976	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACC,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	28,29,29	0	0	NA	NA	I-E:I-E:I-E	16,17,17	17	TypeI-E	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	NA|373aa|up_9|NZ_CP050757.1_968277_969396_-,NA	NA|373aa|up_9|NZ_CP050757.1_968277_969396_-	NA	NA|179aa|up_8|NZ_CP050757.1_969454_969991_-	PRK15260, PRK15260, fimbrial protein SteF; Provisional	NA|157aa|up_7|NZ_CP050757.1_969987_970458_-	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional	NA|258aa|up_6|NZ_CP050757.1_970997_971771_-	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional	NA|900aa|up_5|NZ_CP050757.1_971783_974483_-	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein	NA|196aa|up_4|NZ_CP050757.1_974562_975150_-	PRK15261, PRK15261, fimbrial protein SteA; Provisional	NA|267aa|up_3|NZ_CP050757.1_975759_976560_+	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed	NA|546aa|up_2|NZ_CP050757.1_976787_978425_+	PRK05380, pyrG, CTP synthetase; Validated	NA|433aa|up_1|NZ_CP050757.1_978507_979806_+	PRK00077, eno, enolase; Provisional	NA|224aa|up_0|NZ_CP050757.1_979941_980613_+	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	NA|266aa|down_0|NZ_CP050757.1_982073_982871_+	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]	NA|121aa|down_1|NZ_CP050757.1_982958_983321_-	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS)	NA|600aa|down_2|NZ_CP050757.1_983744_985544_+	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit	NA|571aa|down_3|NZ_CP050757.1_985543_987256_+	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit	NA|245aa|down_4|NZ_CP050757.1_987331_988066_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|down_5|NZ_CP050757.1_988153_989107_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|900aa|down_6|NZ_CP050757.1_989487_992187_-	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	cas8e|512aa|down_7|NZ_CP050757.1_992544_994080_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|201aa|down_8|NZ_CP050757.1_994096_994699_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|353aa|down_9|NZ_CP050757.1_994721_995780_+	pfam09344, Cas_CT1975, CT1975-like protein
GCF_012052445.1_ASM1205244v1	NZ_CP050757	Salmonella enterica subsp. enterica serovar Indiana strain SI173 chromosome, complete genome	3	998517-999582	2,3,2	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	Type I-E	GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG,GTGTTCCCCGCGCCAGCGGGGATAAACCG	29,29,29	0	0	NA	NA	I-E:I-E:I-E	17,17,17	17	TypeI-E	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	NA,NA	NA|245aa|up_9|NZ_CP050757.1_987331_988066_+	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|318aa|up_8|NZ_CP050757.1_988153_989107_-	PRK15379, PRK15379, type III secretion system effector SopD	cas3|900aa|up_7|NZ_CP050757.1_989487_992187_-	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	cas8e|512aa|up_6|NZ_CP050757.1_992544_994080_+	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1	cse2gr11|201aa|up_5|NZ_CP050757.1_994096_994699_+	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2	cas7|353aa|up_4|NZ_CP050757.1_994721_995780_+	pfam09344, Cas_CT1975, CT1975-like protein	cas5|242aa|up_3|NZ_CP050757.1_995789_996515_+	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas6e|235aa|up_2|NZ_CP050757.1_996514_997219_+	cd09664, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e	cas1|306aa|up_1|NZ_CP050757.1_997218_998136_+	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas2|98aa|up_0|NZ_CP050757.1_998138_998432_+	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional	NA|349aa|down_0|NZ_CP050757.1_999596_1000643_-	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional	NA|303aa|down_1|NZ_CP050757.1_1000893_1001802_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|480aa|down_2|NZ_CP050757.1_1001811_1003251_+	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional	NA|202aa|down_3|NZ_CP050757.1_1003237_1003843_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|108aa|down_4|NZ_CP050757.1_1003893_1004217_+	pfam12084, DUF3561, Protein of unknown function (DUF3561)	NA|104aa|down_5|NZ_CP050757.1_1004407_1004719_+	PRK00888, ftsB, cell division protein FtsB; Reviewed	NA|237aa|down_6|NZ_CP050757.1_1004737_1005448_+	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase	NA|160aa|down_7|NZ_CP050757.1_1005447_1005927_+	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|350aa|down_8|NZ_CP050757.1_1005923_1006973_+	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed	NA|254aa|down_9|NZ_CP050757.1_1006953_1007715_+	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional
GCF_012052445.1_ASM1205244v1	NZ_CP050759	Salmonella enterica subsp. enterica serovar Indiana strain SI173 plasmid pSI173-2, complete sequence	1	5691-5810	1	CRISPRCasFinder	no			Orphan	TGAAAGGTGGATGGGTACGCACTGAAAGGTGGATGGGTACGCA	43	0	0	NA	NA	NA	1	1	Orphan	cas3,PD-DExK,DEDDh,WYL,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3,DinG	NA|68aa|up_1|NZ_CP050759.1_4504_4708_+,NA|149aa|down_1|NZ_CP050759.1_7766_8213_+,NA|118aa|down_2|NZ_CP050759.1_8349_8703_+,NA|63aa|down_3|NZ_CP050759.1_10394_10583_-	NA|NA	NA	NA|NA	NA	NA|185aa|up_7|NZ_CP050759.1_151_706_+	TIGR04431, aminoglycoside-6'-N-acetyltransferase_type_Ib, aminoglycoside N(6')-acetyltransferase, AacA4 family	NA|277aa|up_6|NZ_CP050759.1_836_1667_+	COG2602, COG2602, Beta-lactamase class D [Defense mechanisms]	NA|211aa|up_5|NZ_CP050759.1_1804_2437_+	cd03349, LbH_XAT, Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and streptogramin, among others	NA|151aa|up_4|NZ_CP050759.1_2521_2974_+	pfam12120, Arr-ms, Rifampin ADP-ribosyl transferase	NA|116aa|up_3|NZ_CP050759.1_3196_3544_+	pfam00893, Multi_Drug_Res, Small Multidrug Resistance protein	NA|280aa|up_2|NZ_CP050759.1_3537_4377_+	PRK13753, PRK13753, dihydropteroate synthase; Provisional	NA|68aa|up_1|NZ_CP050759.1_4504_4708_+	NA	NA|235aa|up_0|NZ_CP050759.1_4825_5530_-	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|280aa|down_0|NZ_CP050759.1_6062_6902_+	pfam01051, Rep_3, Initiator Replication protein	NA|149aa|down_1|NZ_CP050759.1_7766_8213_+	NA	NA|118aa|down_2|NZ_CP050759.1_8349_8703_+	NA	NA|63aa|down_3|NZ_CP050759.1_10394_10583_-	NA	NA|160aa|down_4|NZ_CP050759.1_14052_14532_+	pfam02082, Rrf2, Transcriptional regulator	NA|375aa|down_5|NZ_CP050759.1_17774_18899_-	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit	NA|235aa|down_6|NZ_CP050759.1_19268_19973_+	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|159aa|down_7|NZ_CP050759.1_21024_21501_+	TIGR04366, hypothetical_protein, cupin fold metalloprotein, WbuC family	NA|292aa|down_8|NZ_CP050759.1_21547_22423_-	PRK15442, PRK15442, beta-lactamase TEM; Provisional	NA|235aa|down_9|NZ_CP050759.1_22840_23545_-	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
