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_012572265.1_ASM1257226v1	NZ_CP043530	Streptococcus pyogenes strain MGAS2221 chromosome, complete genome	1	802842-803075	1,1,1	PILER-CR,CRISPRCasFinder,CRT	no	cas9,cas1,cas2,csn2	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	Type II-C,Type II-B,Type II-A	GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC,GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC,GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC	36,36,36	0	0	NA	NA	II-A:II-A:II-A	2,3,3	3	TypeII-C,TypeII-B,TypeII-A	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	NA|214aa|up_8|NZ_CP043530.1_792301_792943_+,NA	NA|452aa|up_9|NZ_CP043530.1_790812_792168_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|214aa|up_8|NZ_CP043530.1_792301_792943_+	NA	NA|377aa|up_7|NZ_CP043530.1_793005_794136_+	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|251aa|up_6|NZ_CP043530.1_794145_794898_+	COG3884, FatA, Acyl-ACP thioesterase [Lipid metabolism]	NA|255aa|up_5|NZ_CP043530.1_794897_795662_+	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|NZ_CP043530.1_795661_796294_+	COG4478, COG4478, Predicted membrane protein [Function unknown]	cas9|1369aa|up_3|NZ_CP043530.1_796773_800880_+	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	cas1|290aa|up_2|NZ_CP043530.1_800879_801749_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|114aa|up_1|NZ_CP043530.1_801745_802087_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	csn2|221aa|up_0|NZ_CP043530.1_802076_802739_+	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	NA|611aa|down_0|NZ_CP043530.1_803718_805551_+	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	NA|279aa|down_1|NZ_CP043530.1_805808_806645_+	pfam00746, Gram_pos_anchor, LPXTG cell wall anchor motif	NA|146aa|down_2|NZ_CP043530.1_806830_807268_+	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB	NA|340aa|down_3|NZ_CP043530.1_807382_808402_+	COG2855, COG2855, Predicted membrane protein [Function unknown]	NA|142aa|down_4|NZ_CP043530.1_808608_809034_+	COG2893, ManX, Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]	NA|164aa|down_5|NZ_CP043530.1_809052_809544_+	COG3444, COG3444, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]	NA|270aa|down_6|NZ_CP043530.1_809560_810370_+	COG3715, ManY, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]	NA|276aa|down_7|NZ_CP043530.1_810366_811194_+	COG3716, ManZ, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]	NA|550aa|down_8|NZ_CP043530.1_811329_812979_+	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|263aa|down_9|NZ_CP043530.1_812982_813771_+	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
GCF_012572265.1_ASM1257226v1	NZ_CP043530	Streptococcus pyogenes strain MGAS2221 chromosome, complete genome	2	997266-997367	2	CRISPRCasFinder	no		cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	Orphan	AATAATTGGTATAGTCTAATTATA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	NA,NA|262aa|down_6|NZ_CP043530.1_1005197_1005983_+,NA|63aa|down_8|NZ_CP043530.1_1007314_1007503_-	NA|83aa|up_9|NZ_CP043530.1_984983_985232_-	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|773aa|up_8|NZ_CP043530.1_985595_987914_-	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA	NA|441aa|up_7|NZ_CP043530.1_988442_989765_+	COG1115, AlsT, Na+/alanine symporter [Amino acid transport and metabolism]	NA|412aa|up_6|NZ_CP043530.1_989884_991120_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|258aa|up_5|NZ_CP043530.1_991488_992262_-	pfam07373, CAMP_factor, CAMP factor (Cfa)	NA|279aa|up_4|NZ_CP043530.1_992631_993468_-	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|NZ_CP043530.1_993483_994113_-	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|214aa|up_2|NZ_CP043530.1_994122_994764_-	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|112aa|up_1|NZ_CP043530.1_994869_995205_-	COG2824, PhnA, Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]	NA|605aa|up_0|NZ_CP043530.1_995400_997215_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|186aa|down_0|NZ_CP043530.1_997390_997948_-	TIGR02227, Inactive_signal_peptidase_IA	NA|501aa|down_1|NZ_CP043530.1_998165_999668_-	PRK05826, PRK05826, pyruvate kinase; Provisional	NA|338aa|down_2|NZ_CP043530.1_999730_1000744_-	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|1037aa|down_3|NZ_CP043530.1_1000823_1003934_-	PRK07279, dnaE, DNA polymerase III DnaE; Reviewed	NA|124aa|down_4|NZ_CP043530.1_1004118_1004490_+	COG1725, COG1725, Predicted transcriptional regulators [Transcription]	NA|233aa|down_5|NZ_CP043530.1_1004489_1005188_+	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|262aa|down_6|NZ_CP043530.1_1005197_1005983_+	NA	NA|205aa|down_7|NZ_CP043530.1_1006109_1006724_-	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|63aa|down_8|NZ_CP043530.1_1007314_1007503_-	NA	NA|252aa|down_9|NZ_CP043530.1_1007722_1008478_+	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain
GCF_012572265.1_ASM1257226v1	NZ_CP043530	Streptococcus pyogenes strain MGAS2221 chromosome, complete genome	3	1102866-1103001	3	CRISPRCasFinder	no		cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	Orphan	CAGCTTCTTCTGATTGTAAAGCGTCTGTTTGATCCGCCAATGCTTCTAAGGC	52	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	NA,NA	NA|495aa|up_9|NZ_CP043530.1_1090843_1092328_+	PRK13663, PRK13663, hypothetical protein; Provisional	NA|134aa|up_8|NZ_CP043530.1_1092434_1092836_-	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|463aa|up_7|NZ_CP043530.1_1093737_1095126_-	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|484aa|up_6|NZ_CP043530.1_1095174_1096626_-	COG1316, LytR, Transcriptional regulator [Transcription]	NA|164aa|up_5|NZ_CP043530.1_1096833_1097325_-	PRK00131, aroK, shikimate kinase; Reviewed	NA|428aa|up_4|NZ_CP043530.1_1097317_1098601_-	PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional	NA|322aa|up_3|NZ_CP043530.1_1098711_1099677_-	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|287aa|up_2|NZ_CP043530.1_1099678_1100539_-	PRK07281, PRK07281, methionyl aminopeptidase	NA|428aa|up_1|NZ_CP043530.1_1100554_1101838_-	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|181aa|up_0|NZ_CP043530.1_1101846_1102389_-	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|420aa|down_0|NZ_CP043530.1_1103637_1104897_-	PRK12830, PRK12830, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Reviewed	NA|399aa|down_1|NZ_CP043530.1_1105070_1106267_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|793aa|down_2|NZ_CP043530.1_1106803_1109182_-	COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]	NA|314aa|down_3|NZ_CP043530.1_1109385_1110327_+	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA	NA|68aa|down_4|NZ_CP043530.1_1110301_1110505_-	pfam11676, DUF3272, Protein of unknown function (DUF3272)	NA|557aa|down_5|NZ_CP043530.1_1110599_1112270_-	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|166aa|down_6|NZ_CP043530.1_1112269_1112767_-	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|270aa|down_7|NZ_CP043530.1_1112911_1113721_+	COG2339, prsW, Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]	NA|88aa|down_8|NZ_CP043530.1_1113773_1114037_-	COG3326, COG3326, Predicted membrane protein [Function unknown]	NA|209aa|down_9|NZ_CP043530.1_1114116_1114743_-	PRK05480, PRK05480, uridine/cytidine kinase; Provisional
GCF_012572265.1_ASM1257226v1	NZ_CP043530	Streptococcus pyogenes strain MGAS2221 chromosome, complete genome	4	1263121-1263415	4,2,2	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas7,cas8c,cas5,cas3	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	Type I-C,Type I-U, Type I-U?	ATTTCAATCCACTCACCCATGAAGGGTGAGAC,ATTTCAATCCACTCACCCATGAAGGGTGAGAC,TTTCAATCCACTCACCCATGAAGGGTGAGAC	32,32,31	0	0	NA	NA	I-C:I-C:I-C	4,4,4	4	TypeI-C,TypeI-U,TypeI-U?	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	NA,NA	NA|412aa|up_9|NZ_CP043530.1_1253055_1254291_-	PRK01388, PRK01388, arginine deiminase; Provisional	NA|227aa|up_8|NZ_CP043530.1_1254564_1255245_-	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|158aa|up_7|NZ_CP043530.1_1255386_1255860_+	COG1438, ArgR, Arginine repressor [Transcription]	NA|239aa|up_6|NZ_CP043530.1_1256025_1256742_-	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|360aa|up_5|NZ_CP043530.1_1256755_1257835_-	COG2315, MmcQ, Uncharacterized protein conserved in bacteria [Function unknown]	NA|578aa|up_4|NZ_CP043530.1_1257907_1259641_-	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|247aa|up_3|NZ_CP043530.1_1259637_1260378_-	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|369aa|up_2|NZ_CP043530.1_1260465_1261572_-	PRK14018, PRK14018, bifunctional peptide-methionine (S)-S-oxide reductase MsrA/peptide-methionine (R)-S-oxide reductase MsrB	NA|208aa|up_1|NZ_CP043530.1_1261614_1262238_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|237aa|up_0|NZ_CP043530.1_1262250_1262961_-	COG0785, CcdA, Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]	cas2|98aa|down_0|NZ_CP043530.1_1263563_1263857_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|342aa|down_1|NZ_CP043530.1_1263867_1264893_-	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas4|225aa|down_2|NZ_CP043530.1_1264889_1265564_-	COG1468, COG1468, CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense    mechanisms]	cas7|283aa|down_3|NZ_CP043530.1_1265565_1266414_-	COG3649, COG3649, CRISPR system related protein [Defense mechanisms]	cas8c|632aa|down_4|NZ_CP043530.1_1266418_1268314_-	cd09642, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c	cas5|243aa|down_5|NZ_CP043530.1_1268313_1269042_-	TIGR01876, cas_Cas5d, CRISPR-associated protein Cas5, subtype I-C/DVULG	cas3|803aa|down_6|NZ_CP043530.1_1269174_1271583_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	NA|883aa|down_7|NZ_CP043530.1_1271736_1274385_-	PRK05729, valS, valyl-tRNA synthetase; Reviewed	NA|188aa|down_8|NZ_CP043530.1_1274386_1274950_-	pfam13238, AAA_18, AAA domain	NA|132aa|down_9|NZ_CP043530.1_1275550_1275946_-	PRK07758, PRK07758, hypothetical protein; Provisional
GCF_012572265.1_ASM1257226v1	NZ_CP043530	Streptococcus pyogenes strain MGAS2221 chromosome, complete genome	5	1681600-1681733	5	CRISPRCasFinder	no		cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	Orphan	TGGTCTATCGCTAATTCAAGAGCTTTCTTTTTCTCTTCTAACTCTTTTTC	50	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,DinG,csm6,cas9,cas1,cas2,csn2,cas4,cas7,cas8c,cas5,csa3	NA,NA|84aa|down_1|NZ_CP043530.1_1684581_1684833_-,NA|95aa|down_8|NZ_CP043530.1_1692328_1692613_-	NA|595aa|up_9|NZ_CP043530.1_1664098_1665883_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|569aa|up_8|NZ_CP043530.1_1665885_1667592_-	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|150aa|up_7|NZ_CP043530.1_1667584_1668034_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|339aa|up_6|NZ_CP043530.1_1668331_1669348_+	PRK00094, gpsA, NAD(P)H-dependent glycerol-3-phosphate dehydrogenase	NA|300aa|up_5|NZ_CP043530.1_1669380_1670280_+	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|224aa|up_4|NZ_CP043530.1_1670378_1671050_-	COG0705, COG0705, Membrane associated serine protease [Amino acid transport and metabolism]	NA|378aa|up_3|NZ_CP043530.1_1671374_1672508_-	COG5433, COG5433, Transposase [DNA replication, recombination, and repair]	NA|356aa|up_2|NZ_CP043530.1_1672758_1673826_-	TIGR01168, M_protein_serotype, Gram-positive signal peptide, YSIRK family	NA|1165aa|up_1|NZ_CP043530.1_1673922_1677417_-	cd07475, Peptidases_S8_C5a_Peptidase, Peptidase S8 family domain in Streptococcal C5a peptidases	NA|285aa|up_0|NZ_CP043530.1_1679634_1680489_-	pfam03482, SIC, sic protein repeat	NA|530aa|down_0|NZ_CP043530.1_1682316_1683906_-	pfam08270, PRD_Mga, M protein trans-acting positive regulator (MGA) PRD domain	NA|84aa|down_1|NZ_CP043530.1_1684581_1684833_-	NA	NA|534aa|down_2|NZ_CP043530.1_1684911_1686513_-	COG3942, COG3942, Surface antigen [General function prediction only]	NA|463aa|down_3|NZ_CP043530.1_1686614_1688003_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|218aa|down_4|NZ_CP043530.1_1687999_1688653_-	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|NZ_CP043530.1_1688746_1689964_-	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|225aa|down_6|NZ_CP043530.1_1689976_1690651_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|423aa|down_7|NZ_CP043530.1_1690637_1691906_-	COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis, outer membrane]	NA|95aa|down_8|NZ_CP043530.1_1692328_1692613_-	NA	NA|99aa|down_9|NZ_CP043530.1_1692759_1693056_-	pfam14131, DUF4298, Domain of unknown function (DUF4298)
