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_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	1	11385-11484	1	CRISPRCasFinder	no	cas3	cas3,DEDDh,csa3,PrimPol,DinG,RT	Unclear	TGGTTGTTTCTTATACAGTTTTT	23	0	0	NA	NA	NA	1	1	Unclear	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA|175aa|up_9|NZ_CP053210.1_5662_6187_-,NA|58aa|up_8|NZ_CP053210.1_6205_6379_-,NA|92aa|up_5|NZ_CP053210.1_9522_9798_-,NA|114aa|up_4|NZ_CP053210.1_9790_10132_-,NA|98aa|up_3|NZ_CP053210.1_10112_10406_-,NA|72aa|up_2|NZ_CP053210.1_10402_10618_-,NA|67aa|up_1|NZ_CP053210.1_10619_10820_-,NA|151aa|up_0|NZ_CP053210.1_10816_11269_-,NA|62aa|down_0|NZ_CP053210.1_11728_11914_-,NA|101aa|down_3|NZ_CP053210.1_13645_13948_+	NA|175aa|up_9|NZ_CP053210.1_5662_6187_-	NA	NA|58aa|up_8|NZ_CP053210.1_6205_6379_-	NA	NA|485aa|up_7|NZ_CP053210.1_6988_8443_-	TIGR01613, putative_primase, phage/plasmid primase, P4 family, C-terminal domain	NA|287aa|up_6|NZ_CP053210.1_8522_9383_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|92aa|up_5|NZ_CP053210.1_9522_9798_-	NA	NA|114aa|up_4|NZ_CP053210.1_9790_10132_-	NA	NA|98aa|up_3|NZ_CP053210.1_10112_10406_-	NA	NA|72aa|up_2|NZ_CP053210.1_10402_10618_-	NA	NA|67aa|up_1|NZ_CP053210.1_10619_10820_-	NA	NA|151aa|up_0|NZ_CP053210.1_10816_11269_-	NA	NA|62aa|down_0|NZ_CP053210.1_11728_11914_-	NA	NA|72aa|down_1|NZ_CP053210.1_12010_12226_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|246aa|down_2|NZ_CP053210.1_12392_13130_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|101aa|down_3|NZ_CP053210.1_13645_13948_+	NA	NA|389aa|down_4|NZ_CP053210.1_14176_15343_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|372aa|down_5|NZ_CP053210.1_15462_16578_+	PRK09601, PRK09601, redox-regulated ATPase YchF	NA|190aa|down_6|NZ_CP053210.1_16648_17218_+	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]	cas3|1170aa|down_7|NZ_CP053210.1_17218_20728_+	COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]	NA|89aa|down_8|NZ_CP053210.1_20785_21052_+	COG1188, COG1188, Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]	NA|123aa|down_9|NZ_CP053210.1_21044_21413_+	COG2919, COG2919, Septum formation initiator [Cell division and chromosome partitioning]
GCF_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	2	13363-13442	2	CRISPRCasFinder	no	cas3	cas3,DEDDh,csa3,PrimPol,DinG,RT	Unclear	TGGAATTTACTTAGAAAATAAAAAA	25	0	0	NA	NA	NA	1	1	Unclear	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA|92aa|up_8|NZ_CP053210.1_9522_9798_-,NA|114aa|up_7|NZ_CP053210.1_9790_10132_-,NA|98aa|up_6|NZ_CP053210.1_10112_10406_-,NA|72aa|up_5|NZ_CP053210.1_10402_10618_-,NA|67aa|up_4|NZ_CP053210.1_10619_10820_-,NA|151aa|up_3|NZ_CP053210.1_10816_11269_-,NA|62aa|up_2|NZ_CP053210.1_11728_11914_-,NA|101aa|down_0|NZ_CP053210.1_13645_13948_+	NA|287aa|up_9|NZ_CP053210.1_8522_9383_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|92aa|up_8|NZ_CP053210.1_9522_9798_-	NA	NA|114aa|up_7|NZ_CP053210.1_9790_10132_-	NA	NA|98aa|up_6|NZ_CP053210.1_10112_10406_-	NA	NA|72aa|up_5|NZ_CP053210.1_10402_10618_-	NA	NA|67aa|up_4|NZ_CP053210.1_10619_10820_-	NA	NA|151aa|up_3|NZ_CP053210.1_10816_11269_-	NA	NA|62aa|up_2|NZ_CP053210.1_11728_11914_-	NA	NA|72aa|up_1|NZ_CP053210.1_12010_12226_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|246aa|up_0|NZ_CP053210.1_12392_13130_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|101aa|down_0|NZ_CP053210.1_13645_13948_+	NA	NA|389aa|down_1|NZ_CP053210.1_14176_15343_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|372aa|down_2|NZ_CP053210.1_15462_16578_+	PRK09601, PRK09601, redox-regulated ATPase YchF	NA|190aa|down_3|NZ_CP053210.1_16648_17218_+	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]	cas3|1170aa|down_4|NZ_CP053210.1_17218_20728_+	COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]	NA|89aa|down_5|NZ_CP053210.1_20785_21052_+	COG1188, COG1188, Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]	NA|123aa|down_6|NZ_CP053210.1_21044_21413_+	COG2919, COG2919, Septum formation initiator [Cell division and chromosome partitioning]	NA|423aa|down_7|NZ_CP053210.1_21532_22801_+	COG2367, PenP, Beta-lactamase class A [Defense mechanisms]	NA|426aa|down_8|NZ_CP053210.1_22797_24075_+	cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]	NA|181aa|down_9|NZ_CP053210.1_24078_24621_+	COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]
GCF_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	3	112880-112975	3	CRISPRCasFinder	no		cas3,DEDDh,csa3,PrimPol,DinG,RT	Orphan	AATGTGTAAGATTTTTATATATAA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA|74aa|up_9|NZ_CP053210.1_103322_103544_+,NA|107aa|down_7|NZ_CP053210.1_120708_121029_-	NA|74aa|up_9|NZ_CP053210.1_103322_103544_+	NA	NA|310aa|up_8|NZ_CP053210.1_103862_104792_+	COG4209, LplB, ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]	NA|308aa|up_7|NZ_CP053210.1_104805_105729_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|492aa|up_6|NZ_CP053210.1_105986_107462_+	pfam12010, DUF3502, Domain of unknown function (DUF3502)	NA|329aa|up_5|NZ_CP053210.1_107733_108720_+	PRK00142, PRK00142, rhodanese-related sulfurtransferase	NA|287aa|up_4|NZ_CP053210.1_108994_109855_+	pfam14132, DUF4299, Domain of unknown function (DUF4299)	NA|355aa|up_3|NZ_CP053210.1_109925_110990_-	pfam16001, DUF4775, Domain of unknown function (DUF4775)	NA|304aa|up_2|NZ_CP053210.1_111051_111963_-	pfam13349, DUF4097, Putative adhesin	NA|198aa|up_1|NZ_CP053210.1_111955_112549_-	COG4709, COG4709, Predicted membrane protein [Function unknown]	NA|109aa|up_0|NZ_CP053210.1_112535_112862_-	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|389aa|down_0|NZ_CP053210.1_113000_114167_-	cd17339, MFS_NIMT_CynX_like, 2-nitroimidazole and cyanate transporters and similar proteins of the Major Facilitator Superfamily of transporters	NA|386aa|down_1|NZ_CP053210.1_114224_115382_+	cd02525, Succinoglycan_BP_ExoA, ExoA is involved in the biosynthesis of succinoglycan	NA|617aa|down_2|NZ_CP053210.1_115423_117274_+	COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]	NA|211aa|down_3|NZ_CP053210.1_117621_118254_-	cd04302, HAD_5NT, haloacid dehalogenase (HAD)-like 5'-nucleotidases similar to the Pseudomonas aeruginosa PA0065	NA|291aa|down_4|NZ_CP053210.1_118275_119148_-	TIGR00718, Probable_L-serine_dehydratase_alpha_chain, L-serine dehydratase, iron-sulfur-dependent, alpha subunit	NA|224aa|down_5|NZ_CP053210.1_119156_119828_-	COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]	NA|196aa|down_6|NZ_CP053210.1_120069_120657_+	cd00118, LysM, Lysin Motif is a small domain involved in binding peptidoglycan	NA|107aa|down_7|NZ_CP053210.1_120708_121029_-	NA	NA|99aa|down_8|NZ_CP053210.1_121434_121731_+	pfam09683, Lactococcin_972, Bacteriocin (Lactococcin_972)	NA|703aa|down_9|NZ_CP053210.1_121782_123891_+	TIGR01654, unnamed_protein_product, bacteriocin-associated integral membrane (putative immunity) protein
GCF_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	4	790488-790561	4	CRISPRCasFinder	no		cas3,DEDDh,csa3,PrimPol,DinG,RT	Orphan	AAGAAAAGCTAAGCTCGAGAAAGG	24	1	9	790512-790537|790512-790537|790512-790537|790512-790537|790512-790537|790512-790537|790512-790537|790512-790537|790512-790537	NZ_CP053210.1_419022-419047|NZ_CP053210.1_552107-552132|NZ_CP053210.1_640268-640293|NZ_CP053210.1_790462-790487|NZ_CP053210.1_1036996-1037021|NZ_CP053210.1_1853870-1853845|NZ_CP053210.1_33559-33584|NZ_CP053210.1_129247-129272|NZ_CP053210.1_1381470-1381495	NA	1	1	Orphan	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA,NA	NA|214aa|up_9|NZ_CP053210.1_778592_779234_-	PRK00220, PRK00220, glycerol-3-phosphate 1-O-acyltransferase PlsY	NA|648aa|up_8|NZ_CP053210.1_779369_781313_+	TIGR01058, DNA_topoisomerase_4_subunit_B, DNA topoisomerase IV, B subunit, Gram-positive	NA|824aa|up_7|NZ_CP053210.1_781732_784204_+	TIGR01061, DNA_topoisomerase_4_subunit_A, DNA topoisomerase IV, A subunit, Gram-positive	NA|341aa|up_6|NZ_CP053210.1_784333_785356_+	PRK13357, PRK13357, branched-chain amino acid aminotransferase; Provisional	NA|231aa|up_5|NZ_CP053210.1_785411_786104_+	cd08504, PBP2_OppA, The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold	NA|230aa|up_4|NZ_CP053210.1_786168_786858_+	COG3819, COG3819, Predicted membrane protein [Function unknown]	NA|308aa|up_3|NZ_CP053210.1_786854_787778_+	COG3817, COG3817, Predicted membrane protein [Function unknown]	NA|215aa|up_2|NZ_CP053210.1_787792_788437_+	PRK13197, PRK13197, pyrrolidone-carboxylate peptidase; Provisional	NA|77aa|up_1|NZ_CP053210.1_788604_788835_+	pfam11184, DUF2969, Protein of unknown function (DUF2969)	NA|401aa|up_0|NZ_CP053210.1_789207_790410_+	PRK06676, rpsA, 30S ribosomal protein S1; Reviewed	NA|166aa|down_0|NZ_CP053210.1_791995_792493_+	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|552aa|down_1|NZ_CP053210.1_792492_794148_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|65aa|down_2|NZ_CP053210.1_794175_794370_+	pfam11676, DUF3272, Protein of unknown function (DUF3272)	NA|257aa|down_3|NZ_CP053210.1_794519_795290_+	COG0396, sufC, Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]	NA|421aa|down_4|NZ_CP053210.1_795317_796580_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]	NA|409aa|down_5|NZ_CP053210.1_796590_797817_+	TIGR01979, Probable_cysteine_desulfurase, cysteine desulfurases, SufSfamily	NA|144aa|down_6|NZ_CP053210.1_797803_798235_+	TIGR01994, Iron-sulfur_cluster_assembly_scaffold_protein_IscU, SUF system FeS assembly protein, NifU family	NA|471aa|down_7|NZ_CP053210.1_798297_799710_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|414aa|down_8|NZ_CP053210.1_799940_801182_-	COG1686, DacC, D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]	NA|370aa|down_9|NZ_CP053210.1_801284_802394_+	pfam01594, AI-2E_transport, AI-2E family transporter
GCF_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	5	1211958-1212029	5	CRISPRCasFinder	no		cas3,DEDDh,csa3,PrimPol,DinG,RT	Orphan	ATTTACAAAATCAACCTCGCTCT	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA|106aa|up_4|NZ_CP053210.1_1207406_1207724_+,NA	NA|360aa|up_9|NZ_CP053210.1_1203262_1204342_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|308aa|up_8|NZ_CP053210.1_1204391_1205315_-	PRK00856, pyrB, aspartate carbamoyltransferase catalytic subunit	NA|174aa|up_7|NZ_CP053210.1_1205333_1205855_-	PRK05205, PRK05205, bifunctional pyr operon transcriptional regulator/uracil phosphoribosyltransferase PyrR	NA|210aa|up_6|NZ_CP053210.1_1206065_1206695_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|181aa|up_5|NZ_CP053210.1_1206694_1207237_-	COG1399, COG1399, Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]	NA|106aa|up_4|NZ_CP053210.1_1207406_1207724_+	NA	NA|520aa|up_3|NZ_CP053210.1_1207962_1209522_+	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|300aa|up_2|NZ_CP053210.1_1209670_1210570_-	PRK04897, PRK04897, heat shock protein HtpX; Provisional	NA|187aa|up_1|NZ_CP053210.1_1210571_1211132_-	COG1704, LemA, Uncharacterized conserved protein [Function unknown]	NA|238aa|up_0|NZ_CP053210.1_1211225_1211939_+	PRK00107, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA|428aa|down_0|NZ_CP053210.1_1212241_1213525_+	PRK10720, PRK10720, uracil transporter; Provisional	NA|524aa|down_1|NZ_CP053210.1_1213719_1215291_-	PRK10867, PRK10867, signal recognition particle protein; Provisional	NA|111aa|down_2|NZ_CP053210.1_1215302_1215635_-	PRK00118, PRK00118, putative DNA-binding protein; Validated	NA|126aa|down_3|NZ_CP053210.1_1215725_1216103_-	pfam09148, DUF1934, Domain of unknown function (DUF1934)	NA|435aa|down_4|NZ_CP053210.1_1216174_1217479_+	COG1078, COG1078, HD superfamily phosphohydrolases [General function prediction only]	NA|269aa|down_5|NZ_CP053210.1_1217491_1218298_+	PRK10513, PRK10513, sugar phosphate phosphatase; Provisional	NA|116aa|down_6|NZ_CP053210.1_1218465_1218813_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|110aa|down_7|NZ_CP053210.1_1218931_1219261_-	PRK14229, PRK14229, fluoride efflux transporter CrcB	NA|125aa|down_8|NZ_CP053210.1_1219254_1219629_-	PRK14221, PRK14221, fluoride efflux transporter CrcB	NA|89aa|down_9|NZ_CP053210.1_1219625_1219892_-	PRK07248, PRK07248, chorismate mutase
GCF_013047165.1_ASM1304716v1	NZ_CP053210	Streptococcus pneumoniae strain 6A-10 chromosome, complete genome	6	1427959-1428095	6	CRISPRCasFinder	no		cas3,DEDDh,csa3,PrimPol,DinG,RT	Orphan	ACTTCTGGTGTCGGTACATTTGGTGTTGG	29	0	0	NA	NA	NA	2	2	Orphan	cas3,DEDDh,csa3,PrimPol,DinG,RT	NA,NA|532aa|down_3|NZ_CP053210.1_1437393_1438989_-	NA|120aa|up_9|NZ_CP053210.1_1420003_1420363_-	PRK07252, PRK07252, S1 RNA-binding domain-containing protein	NA|467aa|up_8|NZ_CP053210.1_1420364_1421765_-	COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]	NA|80aa|up_7|NZ_CP053210.1_1422059_1422299_-	PRK00391, rpsR, 30S ribosomal protein S18; Reviewed	NA|157aa|up_6|NZ_CP053210.1_1422330_1422801_-	PRK07275, PRK07275, single-stranded DNA-binding protein; Provisional	NA|97aa|up_5|NZ_CP053210.1_1422812_1423103_-	PRK00453, rpsF, 30S ribosomal protein S6; Reviewed	NA|449aa|up_4|NZ_CP053210.1_1423255_1424602_-	PRK03932, asnC, asparaginyl-tRNA synthetase; Validated	NA|122aa|up_3|NZ_CP053210.1_1424617_1424983_-	cd07262, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family	NA|396aa|up_2|NZ_CP053210.1_1424975_1426163_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|163aa|up_1|NZ_CP053210.1_1426159_1426648_-	COG5353, COG5353, Uncharacterized protein conserved in bacteria [Function unknown]	NA|183aa|up_0|NZ_CP053210.1_1426968_1427517_+	COG0431, COG0431, Predicted flavoprotein [General function prediction only]	NA|495aa|down_0|NZ_CP053210.1_1434720_1436205_+	pfam08270, PRD_Mga, M protein trans-acting positive regulator (MGA) PRD domain	NA|243aa|down_1|NZ_CP053210.1_1436255_1436984_-	PRK02101, PRK02101, peroxide stress protein YaaA	NA|55aa|down_2|NZ_CP053210.1_1437062_1437227_-	pfam13129, DUF3953, Protein of unknown function (DUF3953)	NA|532aa|down_3|NZ_CP053210.1_1437393_1438989_-	NA	NA|137aa|down_4|NZ_CP053210.1_1439000_1439411_-	PRK09218, PRK09218, peptide deformylase; Validated	NA|264aa|down_5|NZ_CP053210.1_1439526_1440318_-	PRK11752, PRK11752, putative S-transferase; Provisional	NA|899aa|down_6|NZ_CP053210.1_1440330_1443027_-	cd02089, P-type_ATPase_Ca_prok, prokaryotic P-type Ca(2+)-ATPase similar to Synechococcus elongatus sp	NA|395aa|down_7|NZ_CP053210.1_1443330_1444515_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|624aa|down_8|NZ_CP053210.1_1444657_1446529_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|395aa|down_9|NZ_CP053210.1_1446525_1447710_-	PRK13299, PRK13299, tRNA CCA-pyrophosphorylase; Provisional
