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
GCA_003354825.1_ASM335482v1	CP025838	Streptococcus pneumoniae strain SPN XDR SMC1710-32 chromosome, complete genome	1	11476-11577	1	CRISPRCasFinder	no	cas3	cas3,DinG,DEDDh,RT	Unclear	GTTGTTTCTTATACAGTTTTTCTTG	25	0	0	NA	NA	NA	1	1	Unclear	cas3,DinG,DEDDh,RT	NA|72aa|up_9|CP025838.1_4707_4923_-,NA|70aa|up_8|CP025838.1_4834_5044_+,NA|92aa|up_5|CP025838.1_9610_9886_-,NA|114aa|up_4|CP025838.1_9878_10220_-,NA|98aa|up_3|CP025838.1_10200_10494_-,NA|72aa|up_2|CP025838.1_10490_10706_-,NA|67aa|up_1|CP025838.1_10707_10908_-,NA|132aa|up_0|CP025838.1_10904_11300_-,NA|335aa|down_3|CP025838.1_14019_15024_+	NA|72aa|up_9|CP025838.1_4707_4923_-	NA	NA|70aa|up_8|CP025838.1_4834_5044_+	NA	NA|490aa|up_7|CP025838.1_7088_8558_-	TIGR01613, putative_primase, phage/plasmid primase, P4 family, C-terminal domain	NA|287aa|up_6|CP025838.1_8610_9471_-	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1)	NA|92aa|up_5|CP025838.1_9610_9886_-	NA	NA|114aa|up_4|CP025838.1_9878_10220_-	NA	NA|98aa|up_3|CP025838.1_10200_10494_-	NA	NA|72aa|up_2|CP025838.1_10490_10706_-	NA	NA|67aa|up_1|CP025838.1_10707_10908_-	NA	NA|132aa|up_0|CP025838.1_10904_11300_-	NA	NA|209aa|down_0|CP025838.1_11808_12435_-	COG3646, COG3646, Uncharacterized phage-encoded protein [Function unknown]	NA|78aa|down_1|CP025838.1_12524_12758_-	pfam01381, HTH_3, Helix-turn-helix	NA|319aa|down_2|CP025838.1_12914_13871_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|335aa|down_3|CP025838.1_14019_15024_+	NA	NA|151aa|down_4|CP025838.1_15023_15476_+	COG3654, Doc, Prophage maintenance system killer protein [General function prediction only]	NA|389aa|down_5|CP025838.1_15571_16738_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|372aa|down_6|CP025838.1_16857_17973_+	PRK09601, PRK09601, redox-regulated ATPase YchF	NA|190aa|down_7|CP025838.1_18043_18613_+	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]	cas3|1175aa|down_8|CP025838.1_18613_22138_+	COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]	NA|89aa|down_9|CP025838.1_22205_22472_+	COG1188, COG1188, Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
GCA_003354825.1_ASM335482v1	CP025838	Streptococcus pneumoniae strain SPN XDR SMC1710-32 chromosome, complete genome	2	113197-113292	2	CRISPRCasFinder	no		cas3,DinG,DEDDh,RT	Orphan	AATGTGTAAGATTTTTATATATAA	24	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,RT	NA|62aa|up_7|CP025838.1_106165_106351_-,NA|196aa|down_8|CP025838.1_122553_123141_+	NA|310aa|up_9|CP025838.1_104225_105155_+	COG4209, LplB, ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]	NA|308aa|up_8|CP025838.1_105168_106092_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|62aa|up_7|CP025838.1_106165_106351_-	NA	NA|492aa|up_6|CP025838.1_106349_107825_+	pfam12010, DUF3502, Domain of unknown function (DUF3502)	NA|329aa|up_5|CP025838.1_108096_109083_+	PRK00142, PRK00142, rhodanese-related sulfurtransferase	NA|338aa|up_4|CP025838.1_109051_110065_+	pfam14132, DUF4299, Domain of unknown function (DUF4299)	NA|355aa|up_3|CP025838.1_110242_111307_-	pfam16001, DUF4775, Domain of unknown function (DUF4775)	NA|304aa|up_2|CP025838.1_111368_112280_-	pfam13349, DUF4097, Putative adhesin	NA|198aa|up_1|CP025838.1_112272_112866_-	COG4709, COG4709, Predicted membrane protein [Function unknown]	NA|109aa|up_0|CP025838.1_112852_113179_-	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|389aa|down_0|CP025838.1_113317_114484_-	COG2807, CynX, Cyanate permease [Inorganic ion transport and metabolism]	NA|386aa|down_1|CP025838.1_114541_115699_+	cd02525, Succinoglycan_BP_ExoA, ExoA is involved in the biosynthesis of succinoglycan	NA|617aa|down_2|CP025838.1_115740_117591_+	COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]	NA|211aa|down_3|CP025838.1_118208_118841_-	cd04302, HAD_5NT, haloacid dehalogenase (HAD)-like 5'-nucleotidases similar to the Pseudomonas aeruginosa PA0065	NA|291aa|down_4|CP025838.1_118862_119735_-	TIGR00718, Probable_L-serine_dehydratase_alpha_chain, L-serine dehydratase, iron-sulfur-dependent, alpha subunit	NA|224aa|down_5|CP025838.1_119743_120415_-	COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]	NA|217aa|down_6|CP025838.1_120654_121305_+	cd00118, LysM, Lysin Motif is a small domain involved in binding peptidoglycan	NA|288aa|down_7|CP025838.1_121356_122220_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|196aa|down_8|CP025838.1_122553_123141_+	NA	NA|291aa|down_9|CP025838.1_123384_124257_+	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins
GCA_003354825.1_ASM335482v1	CP025838	Streptococcus pneumoniae strain SPN XDR SMC1710-32 chromosome, complete genome	3	1608900-1608983	3	CRISPRCasFinder	no		cas3,DinG,DEDDh,RT	Orphan	CTTTTTTGAAACGTTTCATTTTT	23	0	0	NA	NA	NA	1	1	Orphan	cas3,DinG,DEDDh,RT	NA|60aa|up_7|CP025838.1_1601429_1601609_-,NA|80aa|up_6|CP025838.1_1601773_1602013_-,NA|69aa|up_5|CP025838.1_1601935_1602142_+,NA	NA|151aa|up_9|CP025838.1_1600624_1601077_-	COG1598, COG1598, Predicted nuclease of the RNAse H fold, HicB family [General    function prediction only]	NA|69aa|up_8|CP025838.1_1601113_1601320_-	pfam07927, HicA_toxin, HicA toxin of bacterial toxin-antitoxin,	NA|60aa|up_7|CP025838.1_1601429_1601609_-	NA	NA|80aa|up_6|CP025838.1_1601773_1602013_-	NA	NA|69aa|up_5|CP025838.1_1601935_1602142_+	NA	NA|424aa|up_4|CP025838.1_1602282_1603554_+	PRK13342, PRK13342, recombination factor protein RarA; Reviewed	NA|440aa|up_3|CP025838.1_1604097_1605417_-	COG1621, SacC, Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]	NA|539aa|up_2|CP025838.1_1605426_1607043_-	cd13581, PBP2_AlgQ_like_2, Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold	NA|297aa|up_1|CP025838.1_1607071_1607962_-	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|306aa|up_0|CP025838.1_1607972_1608890_-	COG4209, LplB, ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]	NA|334aa|down_0|CP025838.1_1609039_1610041_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|494aa|down_1|CP025838.1_1610402_1611884_-	pfam08270, PRD_Mga, M protein trans-acting positive regulator (MGA) PRD domain	NA|55aa|down_2|CP025838.1_1612286_1612451_+	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|189aa|down_3|CP025838.1_1612534_1613101_+	NF033218, anchor_AmaP, alkaline shock response membrane anchor protein AmaP	NA|57aa|down_4|CP025838.1_1613112_1613283_+	COG5547, COG5547, Small integral membrane protein [Function unknown]	NA|203aa|down_5|CP025838.1_1613321_1613930_+	COG1302, COG1302, Uncharacterized protein conserved in bacteria [Function unknown]	NA|68aa|down_6|CP025838.1_1613960_1614164_+	COG3237, COG3237, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_7|CP025838.1_1615420_1616191_-	pfam01925, TauE, Sulfite exporter TauE/SafE	NA|283aa|down_8|CP025838.1_1616205_1617054_-	pfam03781, FGE-sulfatase, Sulfatase-modifying factor enzyme 1	NA|492aa|down_9|CP025838.1_1617050_1618526_-	PRK13759, PRK13759, arylsulfatase; Provisional
