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_004154025.1_ASM415402v1	CP031617	Streptococcus pyogenes strain MGAS29409 chromosome, complete genome	1	646347-646509	1	PILER-CR	no	cas3,cas5,cas8c,cas7,cas4,cas1,cas2	cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	 Type I-U?,Type I-U,Type I-C	TAGTCTCACCCTTCATGGGTGAGTGGATTGAAA	33	0	0	NA	NA	I-C	2	2	TypeI-U?,TypeI-U,TypeI-C	cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	NA|188aa|up_8|CP031617.1_634812_635376_+,NA	NA|60aa|up_9|CP031617.1_634636_634816_+	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|188aa|up_8|CP031617.1_634812_635376_+	NA	NA|883aa|up_7|CP031617.1_635377_638026_+	PRK05729, valS, valyl-tRNA synthetase; Reviewed	cas3|803aa|up_6|CP031617.1_638179_640588_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|243aa|up_5|CP031617.1_640720_641449_+	TIGR01876, cas_Cas5d, CRISPR-associated protein Cas5, subtype I-C/DVULG	cas8c|632aa|up_4|CP031617.1_641448_643344_+	TIGR01863, CRISPR-associated_protein_CT1133_family, CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG	cas7|283aa|up_3|CP031617.1_643348_644197_+	COG3649, COG3649, CRISPR system related protein [Defense mechanisms]	cas4|225aa|up_2|CP031617.1_644198_644873_+	COG1468, COG1468, CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense    mechanisms]	cas1|342aa|up_1|CP031617.1_644869_645895_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|98aa|up_0|CP031617.1_645905_646199_+	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	NA|237aa|down_0|CP031617.1_646669_647380_+	COG0785, CcdA, Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]	NA|208aa|down_1|CP031617.1_647392_648016_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|369aa|down_2|CP031617.1_648058_649165_+	PRK14018, PRK14018, bifunctional peptide-methionine (S)-S-oxide reductase MsrA/peptide-methionine (R)-S-oxide reductase MsrB	NA|247aa|down_3|CP031617.1_649252_649993_+	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|578aa|down_4|CP031617.1_649989_651723_+	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|360aa|down_5|CP031617.1_651795_652875_+	COG2315, MmcQ, Uncharacterized protein conserved in bacteria [Function unknown]	NA|239aa|down_6|CP031617.1_652888_653605_+	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|158aa|down_7|CP031617.1_653770_654244_-	COG1438, ArgR, Arginine repressor [Transcription]	NA|227aa|down_8|CP031617.1_654385_655066_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|412aa|down_9|CP031617.1_655339_656575_+	PRK01388, PRK01388, arginine deiminase; Provisional
GCA_004154025.1_ASM415402v1	CP031617	Streptococcus pyogenes strain MGAS29409 chromosome, complete genome	2	1098336-1098635	1,1,2	CRISPRCasFinder,CRT,PILER-CR	no	csn2,cas2,cas1,cas9	cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	Type II-B,Type II-C,Type II-A	GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC,GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC,GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC	36,36,36	0	0	NA	NA	II-A:II-A:II-A	4,4,3	4	TypeII-B,TypeII-C,TypeII-A	cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	NA|35aa|up_1|CP031617.1_1096944_1097049_-,NA|214aa|down_8|CP031617.1_1108498_1109140_-	NA|276aa|up_9|CP031617.1_1089098_1089926_-	COG3716, ManZ, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]	NA|270aa|up_8|CP031617.1_1089922_1090732_-	COG3715, ManY, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]	NA|164aa|up_7|CP031617.1_1090748_1091240_-	COG3444, COG3444, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]	NA|142aa|up_6|CP031617.1_1091258_1091684_-	COG2893, ManX, Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]	NA|340aa|up_5|CP031617.1_1091890_1092910_-	COG2855, COG2855, Predicted membrane protein [Function unknown]	NA|146aa|up_4|CP031617.1_1093039_1093477_-	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB	NA|325aa|up_3|CP031617.1_1093662_1094637_-	PRK12678, PRK12678, transcription termination factor Rho; Provisional	NA|611aa|up_2|CP031617.1_1095052_1096885_-	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|35aa|up_1|CP031617.1_1096944_1097049_-	NA	NA|378aa|up_0|CP031617.1_1097053_1098187_-	COG5433, COG5433, Transposase [DNA replication, recombination, and repair]	csn2|221aa|down_0|CP031617.1_1098737_1099400_-	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	cas2|114aa|down_1|CP031617.1_1099389_1099731_-	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	cas1|290aa|down_2|CP031617.1_1099727_1100597_-	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas9|1369aa|down_3|CP031617.1_1100596_1104703_-	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	NA|211aa|down_4|CP031617.1_1105147_1105780_-	COG4478, COG4478, Predicted membrane protein [Function unknown]	NA|255aa|down_5|CP031617.1_1105779_1106544_-	cd07530, HAD_Pase_UmpH-like, UmpH/NagD family phosphatase, similar to Escherichia coli UmpH UMP phosphatase/NagD nucleotide phosphatase and Mycobacterium tuberculosis Rv1692 glycerol 3-phosphate phosphatase	NA|251aa|down_6|CP031617.1_1106543_1107296_-	COG3884, FatA, Acyl-ACP thioesterase [Lipid metabolism]	NA|377aa|down_7|CP031617.1_1107305_1108436_-	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|214aa|down_8|CP031617.1_1108498_1109140_-	NA	NA|452aa|down_9|CP031617.1_1109263_1110619_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_004154025.1_ASM415402v1	CP031617	Streptococcus pyogenes strain MGAS29409 chromosome, complete genome	3	1852019-1852115	2	CRISPRCasFinder	no		cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	Orphan	AAAAACCCAATTTTTTTTCGTCTTAT	26	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9,csm6,DinG,csa3	NA|58aa|up_9|CP031617.1_1847124_1847298_-,NA|538aa|up_8|CP031617.1_1847584_1849198_-,NA|174aa|up_7|CP031617.1_1849187_1849709_-,NA|123aa|up_6|CP031617.1_1849718_1850087_-,NA|64aa|up_5|CP031617.1_1849995_1850187_-,NA|111aa|up_4|CP031617.1_1850186_1850519_-,NA|61aa|up_3|CP031617.1_1850530_1850713_-,NA|90aa|up_2|CP031617.1_1850933_1851203_-,NA	NA|58aa|up_9|CP031617.1_1847124_1847298_-	NA	NA|538aa|up_8|CP031617.1_1847584_1849198_-	NA	NA|174aa|up_7|CP031617.1_1849187_1849709_-	NA	NA|123aa|up_6|CP031617.1_1849718_1850087_-	NA	NA|64aa|up_5|CP031617.1_1849995_1850187_-	NA	NA|111aa|up_4|CP031617.1_1850186_1850519_-	NA	NA|61aa|up_3|CP031617.1_1850530_1850713_-	NA	NA|90aa|up_2|CP031617.1_1850933_1851203_-	NA	NA|189aa|up_1|CP031617.1_1851232_1851799_-	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|63aa|up_0|CP031617.1_1851814_1852003_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|148aa|down_0|CP031617.1_1852171_1852615_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|388aa|down_1|CP031617.1_1852794_1853958_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|204aa|down_2|CP031617.1_1854114_1854726_-	PRK05327, rpsD, 30S ribosomal protein S4; Validated	NA|91aa|down_3|CP031617.1_1855455_1855728_-	COG4466, Veg, Uncharacterized protein conserved in bacteria [Function unknown]	NA|456aa|down_4|CP031617.1_1855744_1857112_-	PRK05748, PRK05748, replicative DNA helicase; Provisional	NA|151aa|down_5|CP031617.1_1857141_1857594_-	PRK00137, rplI, 50S ribosomal protein L9; Reviewed	NA|659aa|down_6|CP031617.1_1857590_1859567_-	COG3887, COG3887, Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]	NA|633aa|down_7|CP031617.1_1859656_1861555_-	PRK05192, PRK05192, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	NA|106aa|down_8|CP031617.1_1861678_1861996_-	cd04688, Nudix_Hydrolase_29, Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X	NA|374aa|down_9|CP031617.1_1862771_1863893_-	PRK00143, mnmA, tRNA-specific 2-thiouridylase MnmA; Reviewed
