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_000006785.2_ASM678v2	NC_002737	Streptococcus pyogenes M1 GAS, complete sequence	1	860819-861250	1,1,1	PILER-CR,CRISPRCasFinder,CRT	no	cas9,cas1,cas2,csn2	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	Type II-C,Type II-A,Type II-B	GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC,GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC,GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC	36,36,36	0	0	NA	NA	II-A:II-A:II-A	5,6,6	6	TypeII-C,TypeII-A,TypeII-B	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	NA|214aa|up_7|NC_002737.2_850277_850919_+,NA	NA|319aa|up_9|NC_002737.2_847778_848735_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|452aa|up_8|NC_002737.2_848788_850144_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|214aa|up_7|NC_002737.2_850277_850919_+	NA	NA|377aa|up_6|NC_002737.2_850981_852112_+	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|255aa|up_5|NC_002737.2_852874_853639_+	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|211aa|up_4|NC_002737.2_853638_854271_+	COG4478, COG4478, Predicted membrane protein [Function unknown]	cas9|1369aa|up_3|NC_002737.2_854750_858857_+	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	cas1|290aa|up_2|NC_002737.2_858856_859726_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|114aa|up_1|NC_002737.2_859722_860064_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	csn2|221aa|up_0|NC_002737.2_860053_860716_+	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	NA|611aa|down_0|NC_002737.2_861893_863726_+	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|294aa|down_1|NC_002737.2_863972_864854_+	pfam00746, Gram_pos_anchor, LPXTG cell wall anchor motif	NA|146aa|down_2|NC_002737.2_865039_865477_+	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB	NA|340aa|down_3|NC_002737.2_865591_866611_+	COG2855, COG2855, Predicted membrane protein [Function unknown]	NA|142aa|down_4|NC_002737.2_866817_867243_+	COG2893, ManX, Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]	NA|164aa|down_5|NC_002737.2_867261_867753_+	COG3444, COG3444, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]	NA|270aa|down_6|NC_002737.2_867769_868579_+	COG3715, ManY, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]	NA|276aa|down_7|NC_002737.2_868575_869403_+	COG3716, ManZ, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]	NA|550aa|down_8|NC_002737.2_869538_871188_+	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|263aa|down_9|NC_002737.2_871191_871980_+	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
GCF_000006785.2_ASM678v2	NC_002737	Streptococcus pyogenes M1 GAS, complete sequence	2	1055475-1055576	2	CRISPRCasFinder	no		cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	Orphan	AATAATTGGTATAGTCTAATTATA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	NA,NA|262aa|down_6|NC_002737.2_1063406_1064192_+	NA|83aa|up_9|NC_002737.2_1043192_1043441_-	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|773aa|up_8|NC_002737.2_1043804_1046123_-	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA	NA|441aa|up_7|NC_002737.2_1046651_1047974_+	COG1115, AlsT, Na+/alanine symporter [Amino acid transport and metabolism]	NA|412aa|up_6|NC_002737.2_1048093_1049329_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|258aa|up_5|NC_002737.2_1049697_1050471_-	pfam07373, CAMP_factor, CAMP factor (Cfa)	NA|279aa|up_4|NC_002737.2_1050840_1051677_-	cd00996, PBP2_AatB_like, Polar amino acids-binding domain of ATP-binding cassette transporter-like systems that belong to the type 2 periplasmic binding fold protein superfamily	NA|210aa|up_3|NC_002737.2_1051692_1052322_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|214aa|up_2|NC_002737.2_1052331_1052973_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|112aa|up_1|NC_002737.2_1053078_1053414_-	COG2824, PhnA, Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]	NA|605aa|up_0|NC_002737.2_1053609_1055424_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|186aa|down_0|NC_002737.2_1055599_1056157_-	TIGR02227, Inactive_signal_peptidase_IA	NA|501aa|down_1|NC_002737.2_1056374_1057877_-	PRK05826, PRK05826, pyruvate kinase; Provisional	NA|338aa|down_2|NC_002737.2_1057939_1058953_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|1037aa|down_3|NC_002737.2_1059032_1062143_-	PRK07279, dnaE, DNA polymerase III DnaE; Reviewed	NA|124aa|down_4|NC_002737.2_1062327_1062699_+	COG1725, COG1725, Predicted transcriptional regulators [Transcription]	NA|233aa|down_5|NC_002737.2_1062698_1063397_+	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|262aa|down_6|NC_002737.2_1063406_1064192_+	NA	NA|205aa|down_7|NC_002737.2_1064318_1064933_-	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|207aa|down_8|NC_002737.2_1065673_1066294_+	pfam12978, DUF3862, Domain of Unknown Function with PDB structure (DUF3862)	NA|755aa|down_9|NC_002737.2_1066550_1068815_-	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins
GCF_000006785.2_ASM678v2	NC_002737	Streptococcus pyogenes M1 GAS, complete sequence	3	1123120-1123255	3	CRISPRCasFinder	no		cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	Orphan	CAGCTTCTTCTGATTGTAAAGCGTCTGTTTGATCCGCCAATGCTTCTAAGGC	52	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	NA,NA	NA|495aa|up_9|NC_002737.2_1111097_1112582_+	PRK13663, PRK13663, hypothetical protein; Provisional	NA|134aa|up_8|NC_002737.2_1112688_1113090_-	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|463aa|up_7|NC_002737.2_1113991_1115380_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|484aa|up_6|NC_002737.2_1115428_1116880_-	COG1316, LytR, Transcriptional regulator [Transcription]	NA|164aa|up_5|NC_002737.2_1117087_1117579_-	PRK00131, aroK, shikimate kinase; Reviewed	NA|428aa|up_4|NC_002737.2_1117571_1118855_-	PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional	NA|322aa|up_3|NC_002737.2_1118965_1119931_-	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|287aa|up_2|NC_002737.2_1119932_1120793_-	PRK07281, PRK07281, methionyl aminopeptidase	NA|428aa|up_1|NC_002737.2_1120808_1122092_-	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|181aa|up_0|NC_002737.2_1122100_1122643_-	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|420aa|down_0|NC_002737.2_1123891_1125151_-	PRK12830, PRK12830, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Reviewed	NA|399aa|down_1|NC_002737.2_1125324_1126521_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|793aa|down_2|NC_002737.2_1127057_1129436_-	COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]	NA|314aa|down_3|NC_002737.2_1129639_1130581_+	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA	NA|68aa|down_4|NC_002737.2_1130555_1130759_-	pfam11676, DUF3272, Protein of unknown function (DUF3272)	NA|557aa|down_5|NC_002737.2_1130853_1132524_-	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|166aa|down_6|NC_002737.2_1132523_1133021_-	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|270aa|down_7|NC_002737.2_1133165_1133975_+	COG2339, prsW, Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]	NA|88aa|down_8|NC_002737.2_1134027_1134291_-	COG3326, COG3326, Predicted membrane protein [Function unknown]	NA|209aa|down_9|NC_002737.2_1134370_1134997_-	PRK05480, PRK05480, uridine/cytidine kinase; Provisional
GCF_000006785.2_ASM678v2	NC_002737	Streptococcus pyogenes M1 GAS, complete sequence	4	1283500-1283731	2,4,2	CRT,CRISPRCasFinder,PILER-CR	no	cas2,cas1,cas4,cas7,cas8c,cas5,cas3	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	 Type I-U?,Type I-C,Type I-U	TATTTCAATCCACTCACCCATGAAGGGTGAGAC,TTTCAATCCACTCACCCATGAAGGGTGAGAC,TATTTCAATCCACTCACCCATGAAGGGTGAGACT	33,31,34	0	0	NA	NA	I-C:I-C:I-C	3,3,2	3	TypeI-U?,TypeI-C,TypeI-U	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	NA,NA	NA|412aa|up_9|NC_002737.2_1273435_1274671_-	PRK01388, PRK01388, arginine deiminase; Provisional	NA|227aa|up_8|NC_002737.2_1274944_1275625_-	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|158aa|up_7|NC_002737.2_1275766_1276240_+	COG1438, ArgR, Arginine repressor [Transcription]	NA|239aa|up_6|NC_002737.2_1276405_1277122_-	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|360aa|up_5|NC_002737.2_1277135_1278215_-	COG2315, MmcQ, Uncharacterized protein conserved in bacteria [Function unknown]	NA|578aa|up_4|NC_002737.2_1278287_1280021_-	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|247aa|up_3|NC_002737.2_1280017_1280758_-	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|369aa|up_2|NC_002737.2_1280845_1281952_-	PRK14018, PRK14018, bifunctional peptide-methionine (S)-S-oxide reductase MsrA/peptide-methionine (R)-S-oxide reductase MsrB	NA|208aa|up_1|NC_002737.2_1281994_1282618_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|237aa|up_0|NC_002737.2_1282630_1283341_-	COG0785, CcdA, Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]	cas2|98aa|down_0|NC_002737.2_1283878_1284172_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|342aa|down_1|NC_002737.2_1284182_1285208_-	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas4|225aa|down_2|NC_002737.2_1285204_1285879_-	COG1468, COG1468, CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense    mechanisms]	cas7|283aa|down_3|NC_002737.2_1285880_1286729_-	COG3649, COG3649, CRISPR system related protein [Defense mechanisms]	cas8c|632aa|down_4|NC_002737.2_1286733_1288629_-	cd09642, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c	cas5|243aa|down_5|NC_002737.2_1288628_1289357_-	TIGR01876, cas_Cas5d, CRISPR-associated protein Cas5, subtype I-C/DVULG	cas3|803aa|down_6|NC_002737.2_1289489_1291898_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	NA|883aa|down_7|NC_002737.2_1292051_1294700_-	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|188aa|down_8|NC_002737.2_1294701_1295265_-	pfam13238, AAA_18, AAA domain	NA|132aa|down_9|NC_002737.2_1295865_1296261_-	PRK07758, PRK07758, hypothetical protein; Provisional
GCF_000006785.2_ASM678v2	NC_002737	Streptococcus pyogenes M1 GAS, complete sequence	5	1684700-1684833	5	CRISPRCasFinder	no		cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	Orphan	TGGTCTATCGCTAATTCAAGAGCTTTCTTTTTCTCTTCTAACTCTTTTTC	50	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,DEDDh,csa3	NA,NA|84aa|down_1|NC_002737.2_1687681_1687933_-,NA|95aa|down_8|NC_002737.2_1695452_1695737_-	NA|326aa|up_9|NC_002737.2_1668347_1669325_+	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|274aa|up_8|NC_002737.2_1669321_1670143_+	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|268aa|up_7|NC_002737.2_1670154_1670958_+	COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|209aa|up_6|NC_002737.2_1670941_1671568_+	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|67aa|up_5|NC_002737.2_1671648_1671849_-	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|826aa|up_4|NC_002737.2_1672017_1674495_-	TIGR01363, pneumococcal_histidine_triad_A_protein, streptococcal histidine triad protein	NA|307aa|up_3|NC_002737.2_1674507_1675428_-	cd01017, AdcA, Metal binding protein AdcA	NA|380aa|up_2|NC_002737.2_1675663_1676803_-	PRK10811, rne, ribonuclease E; Reviewed	NA|1182aa|up_1|NC_002737.2_1676899_1680445_-	cd07475, Peptidases_S8_C5a_Peptidase, Peptidase S8 family domain in Streptococcal C5a peptidases	NA|309aa|up_0|NC_002737.2_1682662_1683589_-	pfam03482, SIC, sic protein repeat	NA|530aa|down_0|NC_002737.2_1685416_1687006_-	pfam08270, PRD_Mga, M protein trans-acting positive regulator (MGA) PRD domain	NA|84aa|down_1|NC_002737.2_1687681_1687933_-	NA	NA|542aa|down_2|NC_002737.2_1688011_1689637_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|463aa|down_3|NC_002737.2_1689738_1691127_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|218aa|down_4|NC_002737.2_1691123_1691777_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|406aa|down_5|NC_002737.2_1691870_1693088_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|225aa|down_6|NC_002737.2_1693100_1693775_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|423aa|down_7|NC_002737.2_1693761_1695030_-	COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis, outer membrane]	NA|95aa|down_8|NC_002737.2_1695452_1695737_-	NA	NA|99aa|down_9|NC_002737.2_1695883_1696180_-	pfam14131, DUF4298, Domain of unknown function (DUF4298)
