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_000014485.1_ASM1448v1	NC_008532	Streptococcus thermophilus LMD-9, complete sequence	1	649125-650217	1,1,1	CRISPRCasFinder,CRT,PILER-CR	no	cas9,cas1,cas2,csn2	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	Type II-B,Type II-C,Type II-A	GTTTTTGTACTCTCAAGATTTAAGTAACTGTACAAC,GTTTTTGTACTCTCAAGATTTAAGTAACTGTACAAC,GTTTTTGTACTCTCAAGATTTAAGTAACTGTACA	36,36,34	0	0	NA	NA	NA:NA:NA	16,16,11	16	TypeII-B,TypeII-C,TypeII-A	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	NA,NA	NA|183aa|up_9|NC_008532.1_637761_638310_-	COG2128, COG2128, Uncharacterized conserved protein [Function unknown]	NA|454aa|up_8|NC_008532.1_638525_639887_+	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]	NA|74aa|up_7|NC_008532.1_641093_641315_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|153aa|up_6|NC_008532.1_641314_641773_+	COG3392, COG3392, Adenine-specific DNA methylase [DNA replication, recombination, and repair]	NA|102aa|up_5|NC_008532.1_641966_642272_+	cd01841, NnaC_like, NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases	NA|204aa|up_4|NC_008532.1_642367_642979_+	pfam09911, DUF2140, Uncharacterized protein conserved in bacteria (DUF2140)	cas9|1122aa|up_3|NC_008532.1_643234_646600_+	cd09643, Csn1, CRISPR/Cas system-associated protein Cas9	cas1|304aa|up_2|NC_008532.1_646776_647688_+	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas2|108aa|up_1|NC_008532.1_647689_648013_+	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	csn2|351aa|up_0|NC_008532.1_648009_649062_+	pfam16813, Cas_St_Csn2, CRISPR-associated protein Csn2 subfamily St	NA|272aa|down_0|NC_008532.1_650258_651074_-	COG3689, COG3689, Predicted membrane protein [Function unknown]	NA|301aa|down_1|NC_008532.1_651073_651976_-	COG0701, COG0701, Predicted permeases [General function prediction only]	NA|711aa|down_2|NC_008532.1_652339_654472_+	COG2183, Tex, Transcriptional accessory protein [Transcription]	NA|147aa|down_3|NC_008532.1_654458_654899_+	PRK04351, PRK04351, SprT family protein	NA|88aa|down_4|NC_008532.1_654964_655228_+	COG1983, PspC, Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]	NA|310aa|down_5|NC_008532.1_655357_656287_+	PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional	NA|264aa|down_6|NC_008532.1_656286_657078_+	PRK12437, PRK12437, prolipoprotein diacylglyceryl transferase; Reviewed	NA|133aa|down_7|NC_008532.1_657200_657599_+	COG4768, COG4768, Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]	NA|147aa|down_8|NC_008532.1_657611_658052_+	pfam12732, YtxH, YtxH-like protein	NA|99aa|down_9|NC_008532.1_658072_658369_-	pfam11674, DUF3270, Protein of unknown function (DUF3270)
GCF_000014485.1_ASM1448v1	NC_008532	Streptococcus thermophilus LMD-9, complete sequence	2	775595-775742	2	CRISPRCasFinder	no		cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	Orphan	CTCAGAAAGTCCCGTAGCCGAGGAGTTGGTTGACACTTCTGTGGAGGCTACC	52	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	NA|100aa|up_4|NC_008532.1_767014_767314_+,NA|108aa|up_3|NC_008532.1_767391_767715_+,NA	NA|573aa|up_9|NC_008532.1_760677_762396_-	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|191aa|up_8|NC_008532.1_762478_763051_-	COG4684, COG4684, Predicted membrane protein [Function unknown]	NA|182aa|up_7|NC_008532.1_763078_763624_-	PRK07313, PRK07313, phosphopantothenoylcysteine decarboxylase; Validated	NA|228aa|up_6|NC_008532.1_763616_764300_-	PRK06732, PRK06732, phosphopantothenate--cysteine ligase; Validated	NA|557aa|up_5|NC_008532.1_764493_766164_+	PRK13505, PRK13505, formate--tetrahydrofolate ligase; Provisional	NA|100aa|up_4|NC_008532.1_767014_767314_+	NA	NA|108aa|up_3|NC_008532.1_767391_767715_+	NA	NA|524aa|up_2|NC_008532.1_768536_770107_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|357aa|up_1|NC_008532.1_771867_772938_+	cd13663, PBP2_PotD_PotF_like_2, The periplasmic substrate-binding component of an uncharacterized active transport system closely related to spermidine and putrescine transporters; contains the type 2 periplasmic binding fold	NA|513aa|up_0|NC_008532.1_773055_774594_+	cd01031, EriC, ClC chloride channel EriC	NA|524aa|down_0|NC_008532.1_780400_781971_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|419aa|down_1|NC_008532.1_782143_783400_+	COG3464, COG3464, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|79aa|down_2|NC_008532.1_783499_783736_-	PRK00239, rpsT, 30S ribosomal protein S20; Reviewed	NA|307aa|down_3|NC_008532.1_783804_784725_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|197aa|down_4|NC_008532.1_785047_785638_+	COG2813, RsmC, 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]	NA|133aa|down_5|NC_008532.1_787589_787988_+	PRK05578, PRK05578, cytidine deaminase; Validated	NA|355aa|down_6|NC_008532.1_788056_789121_+	COG1744, Med, Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]	NA|513aa|down_7|NC_008532.1_789234_790773_+	COG3845, COG3845, ABC-type uncharacterized transport systems, ATPase components [General function prediction only]	NA|356aa|down_8|NC_008532.1_790765_791833_+	COG4603, COG4603, ABC-type uncharacterized transport system, permease component [General function prediction only]	NA|319aa|down_9|NC_008532.1_791834_792791_+	COG1079, COG1079, Uncharacterized ABC-type transport system, permease component [General function prediction only]
GCF_000014485.1_ASM1448v1	NC_008532	Streptococcus thermophilus LMD-9, complete sequence	3	897070-897328	2,3,2	PILER-CR,CRISPRCasFinder,CRT	no	cas1,cas2,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	Type III-A	GATATAAACCTAATTACCTCGAGAGGGGACGGAAACCC,GATATAAACCTAATTACCTCGAGAGGGGACGGAAAC,GATATAAACCTAATTACCTCGAGAGGGGACGGAAAC	38,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	2,3,3	3	TypeIII-A	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	NA|73aa|up_8|NC_008532.1_891583_891802_+,NA|72aa|up_4|NC_008532.1_893543_893759_-,NA|77aa|down_8|NC_008532.1_909133_909364_+	NA|64aa|up_9|NC_008532.1_890955_891147_+	COG4405, COG4405, Uncharacterized protein conserved in bacteria [Function unknown]	NA|73aa|up_8|NC_008532.1_891583_891802_+	NA	NA|223aa|up_7|NC_008532.1_892003_892672_+	pfam05857, TraX, TraX protein	NA|70aa|up_6|NC_008532.1_892687_892897_+	pfam05857, TraX, TraX protein	NA|183aa|up_5|NC_008532.1_892938_893487_+	cd03135, GATase1_DJ-1, Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1	NA|72aa|up_4|NC_008532.1_893543_893759_-	NA	NA|268aa|up_3|NC_008532.1_893727_894531_+	PRK00054, PRK00054, dihydroorotate dehydrogenase electron transfer subunit; Reviewed	NA|316aa|up_2|NC_008532.1_894549_895497_+	PRK07259, PRK07259, dihydroorotate dehydrogenase	cas1|335aa|up_1|NC_008532.1_895635_896640_+	cd09634, Cas1_I-II-III, CRISPR/Cas system-associated protein Cas1	cas2|110aa|up_0|NC_008532.1_896639_896969_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas6|244aa|down_0|NC_008532.1_897457_898189_+	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	csm2gr11|127aa|down_1|NC_008532.1_900442_900823_+	pfam03750, Csm2_III-A, Csm2 Type III-A	csm3gr7|221aa|down_2|NC_008532.1_900822_901485_+	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm4gr5|300aa|down_3|NC_008532.1_901486_902386_+	pfam17953, Csm4_C, CRISPR Csm4 C-terminal domain	csm5gr7|358aa|down_4|NC_008532.1_902388_903462_+	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	NA|232aa|down_5|NC_008532.1_904457_905153_+	PRK00230, PRK00230, orotidine-5'-phosphate decarboxylase	NA|210aa|down_6|NC_008532.1_905241_905871_+	PRK00455, pyrE, orotate phosphoribosyltransferase; Validated	NA|484aa|down_7|NC_008532.1_906573_908025_-	COG3104, PTR2, Dipeptide/tripeptide permease [Amino acid transport and metabolism]	NA|77aa|down_8|NC_008532.1_909133_909364_+	NA	NA|218aa|down_9|NC_008532.1_909709_910363_+	pfam02872, 5_nucleotid_C, 5'-nucleotidase, C-terminal domain
GCF_000014485.1_ASM1448v1	NC_008532	Streptococcus thermophilus LMD-9, complete sequence	4	1377229-1377794	3,4,3	PILER-CR,CRISPRCasFinder,CRT	no	csn2,cas2,cas1,cas9	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	Type II-B,Type II-C,Type II-A	GTTTTGGAACCATTCGAAACAACACAGCTCTAAAAC,GTTTTGGAACCATTCGAAACAACACAGCTCTAAAAC,GTTTTGGAACCATTCGAAACAACACAGCTCTAAAAC	36,36,36	0	0	NA	NA	II-A,II-B:II-A,II-B:II-A,II-B	4,8,8	8	TypeII-B,TypeII-C,TypeII-A	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	NA|148aa|up_5|NC_008532.1_1374024_1374468_-,NA|59aa|up_2|NC_008532.1_1375608_1375785_-,NA|80aa|up_0|NC_008532.1_1376905_1377145_-,NA	NA|438aa|up_9|NC_008532.1_1371305_1372619_-	PRK12297, obgE, GTPase CgtA; Reviewed	NA|43aa|up_8|NC_008532.1_1372712_1372841_-	pfam13253, DUF4044, Protein of unknown function (DUF4044)	NA|244aa|up_7|NC_008532.1_1372922_1373654_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|78aa|up_6|NC_008532.1_1373654_1373888_-	COG3708, COG3708, Uncharacterized protein conserved in bacteria [Function unknown]	NA|148aa|up_5|NC_008532.1_1374024_1374468_-	NA	NA|128aa|up_4|NC_008532.1_1374499_1374883_-	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|100aa|up_3|NC_008532.1_1374976_1375276_-	pfam02566, OsmC, OsmC-like protein	NA|59aa|up_2|NC_008532.1_1375608_1375785_-	NA	NA|297aa|up_1|NC_008532.1_1375977_1376868_+	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|80aa|up_0|NC_008532.1_1376905_1377145_-	NA	csn2|220aa|down_0|NC_008532.1_1378115_1378775_-	cd09758, Csn2, CRISPR/Cas system-associated protein Csn2	cas2|115aa|down_1|NC_008532.1_1378764_1379109_-	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms]	cas1|290aa|down_2|NC_008532.1_1379105_1379975_-	cd09720, Cas1_II, CRISPR/Cas system-associated protein Cas1	cas9|1389aa|down_3|NC_008532.1_1379974_1384141_-	TIGR01865, conserved_hypothetical_protein, CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1	NA|216aa|down_4|NC_008532.1_1384473_1385121_-	cd07500, HAD_PSP, phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces cerevisiae SER2p	NA|559aa|down_5|NC_008532.1_1385232_1386909_-	PRK04778, PRK04778, septation ring formation regulator EzrA; Provisional	NA|651aa|down_6|NC_008532.1_1387052_1389005_-	PRK05644, gyrB, DNA gyrase subunit B; Validated	NA|187aa|down_7|NC_008532.1_1389005_1389566_-	cd07523, HAD_YsbA-like, uncharacterized family of the haloacid dehalogenase-like superfamily, similar to the uncharacterized Lactococcus lactis YsbA	NA|232aa|down_8|NC_008532.1_1389651_1390347_-	pfam04172, LrgB, LrgB-like family	NA|125aa|down_9|NC_008532.1_1390339_1390714_-	pfam03788, LrgA, LrgA family
GCF_000014485.1_ASM1448v1	NC_008532	Streptococcus thermophilus LMD-9, complete sequence	5	1602067-1602159	5	CRISPRCasFinder	no	cas3	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	Unclear	CTTTTCTTTACGATATCAATTTTAACATCTTT	32	0	0	NA	NA	NA	1	1	Unclear	cas3,DEDDh,cas9,cas1,cas2,csn2,DinG,cas6,csm2gr11,csm3gr7,csm4gr5,csm5gr7	NA|86aa|up_3|NC_008532.1_1597686_1597944_-,NA|143aa|down_7|NC_008532.1_1608061_1608490_-	cas3|673aa|up_9|NC_008532.1_1589136_1591155_-	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	NA|368aa|up_8|NC_008532.1_1591283_1592387_-	PRK00053, alr, alanine racemase; Reviewed	NA|120aa|up_7|NC_008532.1_1592407_1592767_-	PRK00070, acpS, 4'-phosphopantetheinyl transferase; Provisional	NA|344aa|up_6|NC_008532.1_1592770_1593802_-	PRK09261, PRK09261, phospho-2-dehydro-3-deoxyheptonate aldolase; Validated	NA|344aa|up_5|NC_008532.1_1593899_1594931_-	COG0722, AroG, 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]	NA|850aa|up_4|NC_008532.1_1594954_1597504_-	PRK12904, PRK12904, preprotein translocase subunit SecA; Reviewed	NA|86aa|up_3|NC_008532.1_1597686_1597944_-	NA	NA|316aa|up_2|NC_008532.1_1598030_1598978_-	COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and metabolism]	NA|298aa|up_1|NC_008532.1_1599043_1599937_-	pfam00480, ROK, ROK family	NA|634aa|up_0|NC_008532.1_1600120_1602022_-	TIGR01996, Includes:_Phosphotransferase_enzyme_IIB_component, PTS system, sucrose-specific IIBC component	NA|481aa|down_0|NC_008532.1_1602271_1603714_+	TIGR01322, Sucrose-6-phosphate_hydrolase, sucrose-6-phosphate hydrolase	NA|322aa|down_1|NC_008532.1_1603722_1604688_+	cd06291, PBP1_Qymf-like, ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs	NA|145aa|down_2|NC_008532.1_1604777_1605212_-	PRK00202, nusB, transcription antitermination factor NusB	NA|130aa|down_3|NC_008532.1_1605204_1605594_-	pfam03780, Asp23, Asp23 family, cell envelope-related function	NA|187aa|down_4|NC_008532.1_1605664_1606225_-	PRK00529, PRK00529, elongation factor P; Validated	NA|152aa|down_5|NC_008532.1_1606337_1606793_-	TIGR02571, putative_dCMP_deaminase, ComE operon protein 2	NA|354aa|down_6|NC_008532.1_1606811_1607873_-	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism]	NA|143aa|down_7|NC_008532.1_1608061_1608490_-	NA	NA|198aa|down_8|NC_008532.1_1608534_1609128_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|130aa|down_9|NC_008532.1_1609096_1609486_-	cd03268, ABC_BcrA_bacitracin_resist, ATP-binding cassette domain of the bacitracin-resistance transporter
