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
GCA_003855115.1_ASM385511v1	CP034067	Shigella sonnei strain FDAARGOS_524 chromosome, complete genome	1	108065-108213	1,1	CRISPRCasFinder,PILER-CR	no		DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	Orphan	ATTTCTAAGCTGCCTGTACGGCAGTGAAC,ATTTCTAAGCTGCCTGTACGGCAGTGAAC	29,29	0	0	NA	NA	I-F:I-F	2,2	2	Orphan	DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	NA,NA|82aa|down_2|CP034067.1_111196_111442_+,NA|94aa|down_3|CP034067.1_111694_111976_-,NA|65aa|down_4|CP034067.1_114098_114293_-,NA|82aa|down_6|CP034067.1_115180_115426_-,NA|107aa|down_9|CP034067.1_119101_119422_-	NA|431aa|up_9|CP034067.1_93111_94404_-	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|448aa|up_8|CP034067.1_94494_95838_-	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|204aa|up_7|CP034067.1_95848_96460_-	TIGR00547, Outer-membrane_lipoprotein_carrier_protein, periplasmic chaperone LolA	NA|1356aa|up_6|CP034067.1_96614_100682_-	PRK10263, PRK10263, DNA translocase FtsK; Provisional	NA|165aa|up_5|CP034067.1_100816_101311_-	PRK11169, PRK11169, leucine-responsive transcriptional regulator Lrp	NA|322aa|up_4|CP034067.1_101855_102821_+	PRK10262, PRK10262, thioredoxin reductase; Provisional	NA|589aa|up_3|CP034067.1_102943_104710_+	PRK11174, PRK11174, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|574aa|up_2|CP034067.1_104710_106432_+	PRK11160, PRK11160, cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	NA|235aa|up_1|CP034067.1_106473_107178_+	PRK00301, aat, leucyl/phenylalanyl-tRNA--protein transferase; Reviewed	NA|73aa|up_0|CP034067.1_107462_107681_+	PRK00276, infA, translation initiation factor IF-1; Validated	NA|759aa|down_0|CP034067.1_108427_110704_-	PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional	NA|107aa|down_1|CP034067.1_110734_111055_-	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|82aa|down_2|CP034067.1_111196_111442_+	NA	NA|94aa|down_3|CP034067.1_111694_111976_-	NA	NA|65aa|down_4|CP034067.1_114098_114293_-	NA	NA|141aa|down_5|CP034067.1_114761_115184_-	cd04496, SSB_OBF, SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB)	NA|82aa|down_6|CP034067.1_115180_115426_-	NA	NA|386aa|down_7|CP034067.1_116053_117210_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|100aa|down_8|CP034067.1_118795_119095_-	pfam13973, DUF4222, Domain of unknown function (DUF4222)	NA|107aa|down_9|CP034067.1_119101_119422_-	NA
GCA_003855115.1_ASM385511v1	CP034067	Shigella sonnei strain FDAARGOS_524 chromosome, complete genome	2	256911-257055	2	CRISPRCasFinder	no		DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	Orphan	GTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACAATAAGTGCCGGATGC	52	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	NA,NA|169aa|down_4|CP034067.1_263393_263900_-,NA|255aa|down_8|CP034067.1_268581_269346_-	NA|347aa|up_9|CP034067.1_246111_247152_-	PRK15108, PRK15108, biotin synthase; Provisional	NA|430aa|up_8|CP034067.1_247238_248528_+	PRK07986, PRK07986, adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated	NA|159aa|up_7|CP034067.1_248586_249063_+	PRK10257, PRK10257, putative kinase inhibitor protein; Provisional	NA|588aa|up_6|CP034067.1_249644_251408_+	PRK15370, PRK15370, type III secretion system effector E3 ubiquitin transferase SlrP	NA|60aa|up_5|CP034067.1_251408_251588_-	pfam02413, Caudo_TAP, Caudovirales tail fibre assembly protein, lambda gpK	NA|208aa|up_4|CP034067.1_251587_252211_-	pfam14301, DUF4376, Domain of unknown function (DUF4376)	NA|418aa|up_3|CP034067.1_252161_253415_-	pfam08400, phage_tail_N, Prophage tail fibre N-terminal	NA|386aa|up_2|CP034067.1_253430_254587_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|257aa|up_1|CP034067.1_254656_255427_+	cd00800, INT_Lambda_C, C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase	NA|428aa|up_0|CP034067.1_255561_256845_+	PRK10531, PRK10531, putative acyl-CoA thioester hydrolase	NA|727aa|down_0|CP034067.1_257078_259259_-	PRK11413, PRK11413, putative hydratase; Provisional	NA|318aa|down_1|CP034067.1_260213_261167_+	cd08440, PBP2_LTTR_like_4, TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	NA|332aa|down_2|CP034067.1_261207_262203_-	PRK11028, PRK11028, 6-phosphogluconolactonase; Provisional	NA|44aa|down_3|CP034067.1_262462_262594_-	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain	NA|169aa|down_4|CP034067.1_263393_263900_-	NA	NA|407aa|down_5|CP034067.1_263903_265124_-	pfam09979, DUF2213, Uncharacterized protein conserved in bacteria (DUF2213)	NA|248aa|down_6|CP034067.1_265127_265871_-	pfam04233, Phage_Mu_F, Phage Mu protein F like protein	NA|468aa|down_7|CP034067.1_267227_268631_-	pfam04466, Terminase_3, Phage terminase large subunit	NA|255aa|down_8|CP034067.1_268581_269346_-	NA	NA|170aa|down_9|CP034067.1_269543_270053_+	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]
GCA_003855115.1_ASM385511v1	CP034067	Shigella sonnei strain FDAARGOS_524 chromosome, complete genome	3	993893-994025	2	PILER-CR	no		DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	Orphan	ATCACCAATATTGAAAA	17	0	0	NA	NA	NA	2	2	Orphan	DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	NA|46aa|up_6|CP034067.1_986377_986515_-,NA	NA|126aa|up_9|CP034067.1_984597_984975_+	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed	NA|281aa|up_8|CP034067.1_984981_985824_+	TIGR00668, Bis5'-nucleosyl-tetraphosphatase_symmetrical, bis(5'-nucleosyl)-tetraphosphatase (symmetrical)	NA|160aa|up_7|CP034067.1_985901_986381_-	PRK10769, folA, type 3 dihydrofolate reductase	NA|46aa|up_6|CP034067.1_986377_986515_-	NA	NA|621aa|up_5|CP034067.1_986571_988434_-	PRK03562, PRK03562, glutathione-regulated potassium-efflux system protein KefC; Provisional	NA|177aa|up_4|CP034067.1_988426_988957_-	PRK00871, PRK00871, glutathione-regulated potassium-efflux system oxidoreductase KefF	NA|96aa|up_3|CP034067.1_990454_990742_-	PRK15449, PRK15449, ferredoxin-like protein FixX; Provisional	NA|429aa|up_2|CP034067.1_990738_992025_-	PRK10157, PRK10157, putative oxidoreductase FixC; Provisional	NA|314aa|up_1|CP034067.1_992075_993017_-	PRK03363, fixB, electron transfer flavoprotein subunit alpha/FixB family protein	NA|257aa|up_0|CP034067.1_993031_993802_-	PRK03359, PRK03359, putative electron transfer flavoprotein FixA; Reviewed	NA|505aa|down_0|CP034067.1_994275_995790_+	PRK03356, PRK03356, L-carnitine/gamma-butyrobetaine antiport BCCT transporter	NA|381aa|down_1|CP034067.1_995820_996963_+	PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated	NA|386aa|down_2|CP034067.1_998329_999486_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|518aa|down_3|CP034067.1_999649_1001203_+	PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase; Validated	NA|262aa|down_4|CP034067.1_1001311_1002097_+	PRK03580, PRK03580, crotonobetainyl-CoA hydratase	NA|197aa|down_5|CP034067.1_1002102_1002693_+	PRK13627, PRK13627, carnitine operon protein CaiE; Provisional	NA|132aa|down_6|CP034067.1_1002901_1003297_-	PRK11476, PRK11476, carnitine metabolism transcriptional regulator CaiF	NA|1074aa|down_7|CP034067.1_1004334_1007556_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|383aa|down_8|CP034067.1_1007573_1008722_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|274aa|down_9|CP034067.1_1009177_1009999_-	COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]
GCA_003855115.1_ASM385511v1	CP034067	Shigella sonnei strain FDAARGOS_524 chromosome, complete genome	4	1002731-1002860	3	CRISPRCasFinder	no		DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	Orphan	GCTGGAGAGCAACCGTAGGCCGGATAAGATGCGCCAGCAT	40	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	NA,NA	NA|96aa|up_9|CP034067.1_990454_990742_-	PRK15449, PRK15449, ferredoxin-like protein FixX; Provisional	NA|429aa|up_8|CP034067.1_990738_992025_-	PRK10157, PRK10157, putative oxidoreductase FixC; Provisional	NA|314aa|up_7|CP034067.1_992075_993017_-	PRK03363, fixB, electron transfer flavoprotein subunit alpha/FixB family protein	NA|257aa|up_6|CP034067.1_993031_993802_-	PRK03359, PRK03359, putative electron transfer flavoprotein FixA; Reviewed	NA|505aa|up_5|CP034067.1_994275_995790_+	PRK03356, PRK03356, L-carnitine/gamma-butyrobetaine antiport BCCT transporter	NA|381aa|up_4|CP034067.1_995820_996963_+	PRK03354, PRK03354, crotonobetainyl-CoA dehydrogenase; Validated	NA|386aa|up_3|CP034067.1_998329_999486_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|518aa|up_2|CP034067.1_999649_1001203_+	PRK08008, caiC, putative crotonobetaine/carnitine-CoA ligase; Validated	NA|262aa|up_1|CP034067.1_1001311_1002097_+	PRK03580, PRK03580, crotonobetainyl-CoA hydratase	NA|197aa|up_0|CP034067.1_1002102_1002693_+	PRK13627, PRK13627, carnitine operon protein CaiE; Provisional	NA|132aa|down_0|CP034067.1_1002901_1003297_-	PRK11476, PRK11476, carnitine metabolism transcriptional regulator CaiF	NA|1074aa|down_1|CP034067.1_1004334_1007556_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|383aa|down_2|CP034067.1_1007573_1008722_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|274aa|down_3|CP034067.1_1009177_1009999_-	COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport and metabolism]	NA|305aa|down_4|CP034067.1_1010165_1011080_-	PRK10768, PRK10768, ribonucleoside hydrolase RihC; Provisional	NA|317aa|down_5|CP034067.1_1011145_1012096_-	PRK01045, ispH, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed	NA|150aa|down_6|CP034067.1_1012097_1012547_-	PRK15095, PRK15095, FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional	NA|165aa|down_7|CP034067.1_1012671_1013166_-	PRK00376, lspA, lipoprotein signal peptidase	NA|939aa|down_8|CP034067.1_1013165_1015982_-	PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed	NA|314aa|down_9|CP034067.1_1016024_1016966_-	PRK05627, PRK05627, bifunctional riboflavin kinase/FAD synthetase
GCA_003855115.1_ASM385511v1	CP034067	Shigella sonnei strain FDAARGOS_524 chromosome, complete genome	5	3453769-3453886	4	CRISPRCasFinder	no		DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	Orphan	CCGAGCCGTAGGCCGGATAAGGCGTTCACGC	31	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,TnsE_C,cas3,csa3,c2c9_V-U4,cas7,cas5,cas6e,cas2	NA,NA	NA|268aa|up_9|CP034067.1_3439887_3440691_+	PRK10128, PRK10128, 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	NA|301aa|up_8|CP034067.1_3440731_3441634_-	PRK09956, PRK09956, ISNCY family transposase	NA|397aa|up_7|CP034067.1_3441826_3443017_-	TIGR03379, glycerol3P_GlpC, glycerol-3-phosphate dehydrogenase, anaerobic, C subunit	NA|420aa|up_6|CP034067.1_3443013_3444273_-	COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]	NA|543aa|up_5|CP034067.1_3444262_3445891_-	PRK11101, glpA, anaerobic glycerol-3-phosphate dehydrogenase subunit A	NA|453aa|up_4|CP034067.1_3446163_3447522_+	PRK11273, glpT, glycerol-3-phosphate transporter	NA|359aa|up_3|CP034067.1_3447526_3448603_+	PRK11143, glpQ, glycerophosphodiester phosphodiesterase; Provisional	NA|390aa|up_2|CP034067.1_3449353_3450522_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|85aa|up_1|CP034067.1_3452287_3452542_-	PRK10713, PRK10713, 2Fe-2S ferredoxin-like protein	NA|377aa|up_0|CP034067.1_3452541_3453672_-	PRK09101, nrdB, ribonucleotide-diphosphate reductase subunit beta; Reviewed	NA|762aa|down_0|CP034067.1_3453905_3456191_-	PRK09103, PRK09103, ribonucleoside-diphosphate reductase subunit alpha	NA|425aa|down_1|CP034067.1_3457805_3459079_-	PRK09409, PRK09409, IS2 transposase TnpB; Reviewed	NA|241aa|down_2|CP034067.1_3462102_3462825_-	PRK05134, PRK05134, bifunctional 2-polyprenyl-6-hydroxyphenol methylase/3-demethylubiquinol 3-O-methyltransferase UbiG	NA|876aa|down_3|CP034067.1_3462971_3465599_+	PRK05560, PRK05560, DNA gyrase subunit A; Validated	NA|510aa|down_4|CP034067.1_3465806_3467336_+	COG4685, COG4685, Uncharacterized protein conserved in bacteria [Function unknown]	NA|550aa|down_5|CP034067.1_3469798_3471448_+	COG5445, COG5445, Predicted secreted protein [Function unknown]	NA|259aa|down_6|CP034067.1_3471452_3472229_+	COG4676, COG4676, Uncharacterized protein conserved in bacteria [Function unknown]	NA|395aa|down_7|CP034067.1_3472302_3473487_-	PRK05790, PRK05790, putative acyltransferase; Provisional	NA|441aa|down_8|CP034067.1_3473517_3474840_-	pfam02667, SCFA_trans, Short chain fatty acid transporter	NA|217aa|down_9|CP034067.1_3474836_3475487_-	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit
