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_001559175.2_ASM155917v2	NZ_CP014027	Streptococcus pyogenes strain FDAARGOS_149 chromosome, complete genome	1	922241-922374	1	CRISPRCasFinder	no		csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	Orphan	GAAAAAGAGTTAGAAGAGAAAAAGGAAGCTCTTGAATTAGCGATAGACCA	50	0	0	NA	NA	NA	1	1	Orphan	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	NA|95aa|up_8|NZ_CP014027.2_911360_911645_+,NA|84aa|up_1|NZ_CP014027.2_919140_919392_+,NA	NA|99aa|up_9|NZ_CP014027.2_910917_911214_+	pfam14131, DUF4298, Domain of unknown function (DUF4298)	NA|95aa|up_8|NZ_CP014027.2_911360_911645_+	NA	NA|423aa|up_7|NZ_CP014027.2_912067_913336_+	COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis, outer membrane]	NA|225aa|up_6|NZ_CP014027.2_913322_913997_+	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|406aa|up_5|NZ_CP014027.2_914009_915227_+	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB	NA|218aa|up_4|NZ_CP014027.2_915320_915974_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|463aa|up_3|NZ_CP014027.2_915970_917359_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|534aa|up_2|NZ_CP014027.2_917460_919062_+	COG3942, COG3942, Surface antigen [General function prediction only]	NA|84aa|up_1|NZ_CP014027.2_919140_919392_+	NA	NA|530aa|up_0|NZ_CP014027.2_920067_921657_+	pfam08270, PRD_Mga, M protein trans-acting positive regulator (MGA) PRD domain	NA|311aa|down_0|NZ_CP014027.2_923484_924417_+	pfam03482, SIC, sic protein repeat	NA|1165aa|down_1|NZ_CP014027.2_926634_930129_+	cd07475, Peptidases_S8_C5a_Peptidase, Peptidase S8 family domain in Streptococcal C5a peptidases	NA|356aa|down_2|NZ_CP014027.2_930225_931293_+	TIGR01168, M_protein_serotype, Gram-positive signal peptide, YSIRK family	NA|378aa|down_3|NZ_CP014027.2_931543_932677_+	COG5433, COG5433, Transposase [DNA replication, recombination, and repair]	NA|224aa|down_4|NZ_CP014027.2_933001_933673_+	COG0705, COG0705, Membrane associated serine protease [Amino acid transport and metabolism]	NA|300aa|down_5|NZ_CP014027.2_933771_934671_-	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|339aa|down_6|NZ_CP014027.2_934703_935720_-	PRK00094, gpsA, NAD(P)H-dependent glycerol-3-phosphate dehydrogenase	NA|150aa|down_7|NZ_CP014027.2_936017_936467_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|569aa|down_8|NZ_CP014027.2_936459_938166_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|595aa|down_9|NZ_CP014027.2_938168_939953_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
GCF_001559175.2_ASM155917v2	NZ_CP014027	Streptococcus pyogenes strain FDAARGOS_149 chromosome, complete genome	2	1340624-1340918	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no	cas3,cas5,cas8c,cas7,cas4,cas1,cas2	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	Type I-U, Type I-U?,Type I-C	GTCTCACCCTTCATGGGTGAGTGGATTGAAA,GTCTCACCCTTCATGGGTGAGTGGATTGAAAT,GTCTCACCCTTCATGGGTGAGTGGATTGAAAT	31,32,32	0	0	NA	NA	I-C:I-C:I-C	4,4,4	4	TypeI-U,TypeI-U?,TypeI-C	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	NA,NA	NA|132aa|up_9|NZ_CP014027.2_1328092_1328488_+	PRK07758, PRK07758, hypothetical protein; Provisional	NA|188aa|up_8|NZ_CP014027.2_1329088_1329652_+	pfam13238, AAA_18, AAA domain	NA|883aa|up_7|NZ_CP014027.2_1329653_1332302_+	PRK05729, valS, valyl-tRNA synthetase; Reviewed	cas3|803aa|up_6|NZ_CP014027.2_1332455_1334864_+	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|243aa|up_5|NZ_CP014027.2_1334996_1335725_+	TIGR01876, cas_Cas5d, CRISPR-associated protein Cas5, subtype I-C/DVULG	cas8c|632aa|up_4|NZ_CP014027.2_1335724_1337620_+	cd09642, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c	cas7|283aa|up_3|NZ_CP014027.2_1337624_1338473_+	COG3649, COG3649, CRISPR system related protein [Defense mechanisms]	cas4|225aa|up_2|NZ_CP014027.2_1338474_1339149_+	COG1468, COG1468, CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense    mechanisms]	cas1|342aa|up_1|NZ_CP014027.2_1339145_1340171_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|98aa|up_0|NZ_CP014027.2_1340181_1340475_+	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	NA|237aa|down_0|NZ_CP014027.2_1341077_1341788_+	COG0785, CcdA, Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]	NA|208aa|down_1|NZ_CP014027.2_1341800_1342424_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|369aa|down_2|NZ_CP014027.2_1342466_1343573_+	PRK14018, PRK14018, bifunctional peptide-methionine (S)-S-oxide reductase MsrA/peptide-methionine (R)-S-oxide reductase MsrB	NA|247aa|down_3|NZ_CP014027.2_1343660_1344401_+	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|578aa|down_4|NZ_CP014027.2_1344397_1346131_+	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|360aa|down_5|NZ_CP014027.2_1346203_1347283_+	COG2315, MmcQ, Uncharacterized protein conserved in bacteria [Function unknown]	NA|239aa|down_6|NZ_CP014027.2_1347296_1348013_+	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|158aa|down_7|NZ_CP014027.2_1348178_1348652_-	COG1438, ArgR, Arginine repressor [Transcription]	NA|227aa|down_8|NZ_CP014027.2_1348793_1349474_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|412aa|down_9|NZ_CP014027.2_1349747_1350983_+	PRK01388, PRK01388, arginine deiminase; Provisional
GCF_001559175.2_ASM155917v2	NZ_CP014027	Streptococcus pyogenes strain FDAARGOS_149 chromosome, complete genome	3	1502102-1502237	3	CRISPRCasFinder	no		csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	Orphan	GCCTTAGAAGCATTAGCGGATCAAACAGACGCTTTACAATCAGAAGAAGCTG	52	0	0	NA	NA	NA	1	1	Orphan	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	NA,NA	NA|209aa|up_9|NZ_CP014027.2_1490359_1490986_+	PRK05480, PRK05480, uridine/cytidine kinase; Provisional	NA|88aa|up_8|NZ_CP014027.2_1491065_1491329_+	COG3326, COG3326, Predicted membrane protein [Function unknown]	NA|270aa|up_7|NZ_CP014027.2_1491381_1492191_-	COG2339, prsW, Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]	NA|166aa|up_6|NZ_CP014027.2_1492335_1492833_+	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|557aa|up_5|NZ_CP014027.2_1492832_1494503_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|68aa|up_4|NZ_CP014027.2_1494597_1494801_+	pfam11676, DUF3272, Protein of unknown function (DUF3272)	NA|314aa|up_3|NZ_CP014027.2_1494775_1495717_-	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA	NA|793aa|up_2|NZ_CP014027.2_1495920_1498299_+	COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]	NA|399aa|up_1|NZ_CP014027.2_1498835_1500032_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|420aa|up_0|NZ_CP014027.2_1500205_1501465_+	PRK12830, PRK12830, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Reviewed	NA|181aa|down_0|NZ_CP014027.2_1502713_1503256_+	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|428aa|down_1|NZ_CP014027.2_1503264_1504548_+	COG4109, COG4109, Predicted transcriptional regulator containing CBS domains [Transcription]	NA|287aa|down_2|NZ_CP014027.2_1504563_1505424_+	PRK07281, PRK07281, methionyl aminopeptidase	NA|322aa|down_3|NZ_CP014027.2_1505425_1506391_+	COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]	NA|428aa|down_4|NZ_CP014027.2_1506501_1507785_+	PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional	NA|164aa|down_5|NZ_CP014027.2_1507777_1508269_+	PRK00131, aroK, shikimate kinase; Reviewed	NA|484aa|down_6|NZ_CP014027.2_1508476_1509928_+	COG1316, LytR, Transcriptional regulator [Transcription]	NA|463aa|down_7|NZ_CP014027.2_1509976_1511365_+	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|134aa|down_8|NZ_CP014027.2_1512266_1512668_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|495aa|down_9|NZ_CP014027.2_1512774_1514259_-	PRK13663, PRK13663, hypothetical protein; Provisional
GCF_001559175.2_ASM155917v2	NZ_CP014027	Streptococcus pyogenes strain FDAARGOS_149 chromosome, complete genome	4	1607736-1607836	4	CRISPRCasFinder	no		csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	Orphan	TATAATTAGACTATACCAATTTT	23	0	0	NA	NA	NA	1	1	Orphan	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	NA|63aa|up_8|NZ_CP014027.2_1597599_1597788_+,NA|262aa|up_6|NZ_CP014027.2_1599119_1599905_-,NA	NA|252aa|up_9|NZ_CP014027.2_1596624_1597380_-	pfam02876, Stap_Strp_tox_C, Staphylococcal/Streptococcal toxin, beta-grasp domain	NA|63aa|up_8|NZ_CP014027.2_1597599_1597788_+	NA	NA|205aa|up_7|NZ_CP014027.2_1598378_1598993_+	COG0398, COG0398, Uncharacterized conserved protein [Function unknown]	NA|262aa|up_6|NZ_CP014027.2_1599119_1599905_-	NA	NA|233aa|up_5|NZ_CP014027.2_1599914_1600613_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|124aa|up_4|NZ_CP014027.2_1600612_1600984_-	COG1725, COG1725, Predicted transcriptional regulators [Transcription]	NA|1037aa|up_3|NZ_CP014027.2_1601168_1604279_+	PRK07279, dnaE, DNA polymerase III DnaE; Reviewed	NA|338aa|up_2|NZ_CP014027.2_1604358_1605372_+	PRK03202, PRK03202, ATP-dependent 6-phosphofructokinase	NA|501aa|up_1|NZ_CP014027.2_1605434_1606937_+	PRK05826, PRK05826, pyruvate kinase; Provisional	NA|186aa|up_0|NZ_CP014027.2_1607154_1607712_+	TIGR02227, Inactive_signal_peptidase_IA	NA|605aa|down_0|NZ_CP014027.2_1607887_1609702_+	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|112aa|down_1|NZ_CP014027.2_1609897_1610233_+	COG2824, PhnA, Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]	NA|214aa|down_2|NZ_CP014027.2_1610338_1610980_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|210aa|down_3|NZ_CP014027.2_1610989_1611619_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|279aa|down_4|NZ_CP014027.2_1611634_1612471_+	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|258aa|down_5|NZ_CP014027.2_1612840_1613614_+	pfam07373, CAMP_factor, CAMP factor (Cfa)	NA|412aa|down_6|NZ_CP014027.2_1613982_1615218_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|441aa|down_7|NZ_CP014027.2_1615337_1616660_-	COG1115, AlsT, Na+/alanine symporter [Amino acid transport and metabolism]	NA|773aa|down_8|NZ_CP014027.2_1617188_1619507_+	TIGR01073, ATP-dependent_DNA_helicase_PcrA, ATP-dependent DNA helicase PcrA	NA|83aa|down_9|NZ_CP014027.2_1619870_1620119_+	COG2261, COG2261, Predicted membrane protein [Function unknown]
GCF_001559175.2_ASM155917v2	NZ_CP014027	Streptococcus pyogenes strain FDAARGOS_149 chromosome, complete genome	5	1802083-1802316	5,2,2	CRISPRCasFinder,CRT,PILER-CR	no	csn2,cas2,cas1,cas9	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	Type II-A,Type II-C,Type II-B	GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC,GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC,GTTTTGGGACCATTCAAAACAGCATAGCTCTAAAAC	36,36,36	0	0	NA	NA	II-A:II-A:II-A	3,3,2	3	TypeII-A,TypeII-C,TypeII-B	csm6,DinG,DEDDh,cas3,csa3,cas5,cas8c,cas7,cas4,cas1,cas2,csn2,cas9	NA,NA|214aa|down_8|NZ_CP014027.2_1812214_1812856_-	NA|263aa|up_9|NZ_CP014027.2_1791331_1792120_-	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|550aa|up_8|NZ_CP014027.2_1792123_1793773_-	COG2972, COG2972, Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]	NA|276aa|up_7|NZ_CP014027.2_1793908_1794736_-	COG3716, ManZ, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]	NA|270aa|up_6|NZ_CP014027.2_1794732_1795542_-	COG3715, ManY, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]	NA|164aa|up_5|NZ_CP014027.2_1795558_1796050_-	COG3444, COG3444, Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]	NA|142aa|up_4|NZ_CP014027.2_1796068_1796494_-	COG2893, ManX, Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]	NA|340aa|up_3|NZ_CP014027.2_1796700_1797720_-	COG2855, COG2855, Predicted membrane protein [Function unknown]	NA|146aa|up_2|NZ_CP014027.2_1797834_1798272_-	PRK00222, PRK00222, peptide-methionine (R)-S-oxide reductase MsrB	NA|330aa|up_1|NZ_CP014027.2_1798457_1799447_-	pfam01391, Collagen, Collagen triple helix repeat (20 copies)	NA|611aa|up_0|NZ_CP014027.2_1799606_1801439_-	PRK05433, PRK05433, GTP-binding protein LepA; Provisional	csn2|221aa|down_0|NZ_CP014027.2_1802418_1803081_-	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	cas2|114aa|down_1|NZ_CP014027.2_1803070_1803412_-	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	cas1|290aa|down_2|NZ_CP014027.2_1803408_1804278_-	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas9|1369aa|down_3|NZ_CP014027.2_1804277_1808384_-	COG3513, COG3513, Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]	NA|211aa|down_4|NZ_CP014027.2_1808863_1809496_-	COG4478, COG4478, Predicted membrane protein [Function unknown]	NA|255aa|down_5|NZ_CP014027.2_1809495_1810260_-	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|NZ_CP014027.2_1810259_1811012_-	COG3884, FatA, Acyl-ACP thioesterase [Lipid metabolism]	NA|377aa|down_7|NZ_CP014027.2_1811021_1812152_-	PRK08599, PRK08599, oxygen-independent coproporphyrinogen III oxidase	NA|214aa|down_8|NZ_CP014027.2_1812214_1812856_-	NA	NA|452aa|down_9|NZ_CP014027.2_1812989_1814345_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional
