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_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	1	334636-334736	1	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	GGGCCGTCGGCGCAGCCGACTGAGGGG	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA,NA|394aa|down_2|NZ_AP012331.1_340954_342136_+	NA|353aa|up_9|NZ_AP012331.1_322963_324022_+	COG1609, PurR, Transcriptional regulators [Transcription]	NA|350aa|up_8|NZ_AP012331.1_324426_325476_+	COG3940, COG3940, Predicted beta-xylosidase [General function prediction only]	NA|437aa|up_7|NZ_AP012331.1_325920_327231_+	cd14748, PBP2_UgpB, The periplasmic-binding component of ABC transport system specific for sn-glycerol-3-phosphate; possesses type 2 periplasmic binding fold	NA|315aa|up_6|NZ_AP012331.1_327300_328245_+	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]	NA|308aa|up_5|NZ_AP012331.1_328241_329165_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|317aa|up_4|NZ_AP012331.1_329046_329997_-	cd06267, PBP1_LacI_sugar_binding-like, ligand binding domain of the LacI transcriptional regulator family belonging to the type 1 periplasmic-binding fold protein superfamily	NA|120aa|up_3|NZ_AP012331.1_329981_330341_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|322aa|up_2|NZ_AP012331.1_331048_332014_+	PRK05710, PRK05710, tRNA glutamyl-Q(34) synthetase GluQRS	NA|291aa|up_1|NZ_AP012331.1_332387_333260_+	cd00635, PLPDE_III_YBL036c_like, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins	NA|365aa|up_0|NZ_AP012331.1_333520_334615_+	cd05827, Sortase_C, Sortase domain found in class C sortases	NA|1315aa|down_0|NZ_AP012331.1_335118_339063_+	cd06900, lectin_VcfQ, VcfQ bacterial pilus biogenesis protein, lectin domain	NA|509aa|down_1|NZ_AP012331.1_339310_340837_+	TIGR04226, Fimbrial_subunit_type_2, fimbrial isopeptide formation D2 domain	NA|394aa|down_2|NZ_AP012331.1_340954_342136_+	NA	NA|272aa|down_3|NZ_AP012331.1_343648_344464_+	COG0179, MhpD, 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]	NA|310aa|down_4|NZ_AP012331.1_345317_346247_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|892aa|down_5|NZ_AP012331.1_346542_349218_+	TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB	NA|908aa|down_6|NZ_AP012331.1_349404_352128_-	cd02094, P-type_ATPase_Cu-like, P-type heavy metal-transporting ATPase, similar to human copper-transporting ATPases, ATP7A and ATP7B	NA|94aa|down_7|NZ_AP012331.1_352237_352519_+	COG1937, COG1937, Uncharacterized protein conserved in bacteria [Function unknown]	NA|451aa|down_8|NZ_AP012331.1_352590_353943_+	pfam02646, RmuC, RmuC family	NA|228aa|down_9|NZ_AP012331.1_354528_355212_+	PRK00455, pyrE, orotate phosphoribosyltransferase; Validated
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	2	844314-844390	2	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	GGGACGTTGCTGCCACAGGGTGGT	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA|312aa|up_9|NZ_AP012331.1_833795_834731_+,NA|144aa|up_6|NZ_AP012331.1_836778_837210_+,NA|162aa|down_4|NZ_AP012331.1_850842_851328_+	NA|312aa|up_9|NZ_AP012331.1_833795_834731_+	NA	NA|314aa|up_8|NZ_AP012331.1_834970_835912_-	cd12169, PGDH_like_1, Putative D-3-Phosphoglycerate Dehydrogenases	NA|74aa|up_7|NZ_AP012331.1_836346_836568_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|144aa|up_6|NZ_AP012331.1_836778_837210_+	NA	NA|246aa|up_5|NZ_AP012331.1_837219_837957_+	COG3910, COG3910, Predicted ATPase [General function prediction only]	NA|345aa|up_4|NZ_AP012331.1_838034_839069_-	COG1397, DraG, ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]	NA|477aa|up_3|NZ_AP012331.1_839106_840537_-	TIGR01995, beta-glucosides_PTS_EIIBCA, PTS system, beta-glucoside-specific IIABC component	NA|245aa|up_2|NZ_AP012331.1_840760_841495_+	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|154aa|up_1|NZ_AP012331.1_842217_842679_+	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|450aa|up_0|NZ_AP012331.1_842787_844137_+	pfam13194, DUF4010, Domain of unknown function (DUF4010)	NA|341aa|down_0|NZ_AP012331.1_845260_846283_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|394aa|down_1|NZ_AP012331.1_846379_847561_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|679aa|down_2|NZ_AP012331.1_847773_849810_+	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	NA|161aa|down_3|NZ_AP012331.1_849996_850479_+	PRK02260, PRK02260, S-ribosylhomocysteine lyase	NA|162aa|down_4|NZ_AP012331.1_850842_851328_+	NA	NA|472aa|down_5|NZ_AP012331.1_851405_852821_-	TIGR00909, putative_amino_acid_transporter, amino acid transporter	NA|453aa|down_6|NZ_AP012331.1_853116_854475_+	cd00430, PLPDE_III_AR, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase	NA|880aa|down_7|NZ_AP012331.1_854904_857544_+	pfam17802, SpaA, Prealbumin-like fold domain	NA|550aa|down_8|NZ_AP012331.1_857766_859416_+	TIGR04226, Fimbrial_subunit_type_2, fimbrial isopeptide formation D2 domain	NA|440aa|down_9|NZ_AP012331.1_860486_861806_+	PRK03007, PRK03007, deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	3	928431-928582	3	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	GGTGGCTCTGCGCCGCCGCGGGGCGGGG	28	0	0	NA	NA	NA	2	2	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA|256aa|up_7|NZ_AP012331.1_915220_915988_+,NA|320aa|down_0|NZ_AP012331.1_929396_930356_+,NA|220aa|down_9|NZ_AP012331.1_938881_939541_-	NA|57aa|up_9|NZ_AP012331.1_914675_914846_-	PRK00595, rpmG, 50S ribosomal protein L33; Validated	NA|76aa|up_8|NZ_AP012331.1_914943_915171_-	PRK00359, rpmB, 50S ribosomal protein L28; Reviewed	NA|256aa|up_7|NZ_AP012331.1_915220_915988_+	NA	NA|309aa|up_6|NZ_AP012331.1_916207_917134_+	cd01020, TroA_b, Metal binding protein TroA_b	NA|816aa|up_5|NZ_AP012331.1_917444_919892_-	pfam09924, DUF2156, Uncharacterized conserved protein (DUF2156)	NA|459aa|up_4|NZ_AP012331.1_920191_921568_-	COG0627, COG0627, Predicted esterase [General function prediction only]	NA|702aa|up_3|NZ_AP012331.1_921921_924027_+	cd16015, LTA_synthase, Lipoteichoic acid synthase like	NA|422aa|up_2|NZ_AP012331.1_924245_925511_-	PRK00885, PRK00885, phosphoribosylamine--glycine ligase; Provisional	NA|346aa|up_1|NZ_AP012331.1_925591_926629_-	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|513aa|up_0|NZ_AP012331.1_926796_928335_-	PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional	NA|320aa|down_0|NZ_AP012331.1_929396_930356_+	NA	NA|499aa|down_1|NZ_AP012331.1_931475_932972_+	COG3711, BglG, Transcriptional antiterminator [Transcription]	NA|145aa|down_2|NZ_AP012331.1_932959_933394_+	COG1762, PtsN, Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]	NA|154aa|down_3|NZ_AP012331.1_933396_933858_+	TIGR00848, Includes:_Phosphotransferase_enzyme_IIA_component, PTS system, fructose subfamily, IIA component	NA|104aa|down_4|NZ_AP012331.1_933961_934273_+	COG1445, FrwB, Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]	NA|373aa|down_5|NZ_AP012331.1_934324_935443_+	COG1299, FruA, Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]	NA|239aa|down_6|NZ_AP012331.1_935543_936260_+	PRK09722, PRK09722, allulose-6-phosphate 3-epimerase; Provisional	NA|502aa|down_7|NZ_AP012331.1_936417_937923_+	cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Polymerase V	NA|158aa|down_8|NZ_AP012331.1_938092_938566_+	pfam08863, YolD, YolD-like protein	NA|220aa|down_9|NZ_AP012331.1_938881_939541_-	NA
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	4	1677990-1678094	4	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	CGCTGCTCGCTGCTACGGAGGCTCACTTATTCGCCTCCG	39	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA,NA	NA|217aa|up_9|NZ_AP012331.1_1664229_1664880_-	COG4832, COG4832, Uncharacterized conserved protein [Function unknown]	NA|193aa|up_8|NZ_AP012331.1_1665002_1665581_-	pfam06042, NTP_transf_6, Nucleotidyltransferase	NA|715aa|up_7|NZ_AP012331.1_1666277_1668422_-	TIGR02100, Glycogen_operon_protein_GlgX_homolog, glycogen debranching enzyme GlgX	NA|209aa|up_6|NZ_AP012331.1_1668646_1669273_-	cd03424, ADPRase_NUDT5, ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate	NA|305aa|up_5|NZ_AP012331.1_1669327_1670242_-	pfam01784, NIF3, NIF3 (NGG1p interacting factor 3)	NA|954aa|up_4|NZ_AP012331.1_1670295_1673157_-	PRK05755, PRK05755, DNA polymerase I; Provisional	NA|266aa|up_3|NZ_AP012331.1_1673149_1673947_-	COG3707, AmiR, Response regulator with putative antiterminator output domain [Signal transduction mechanisms]	NA|202aa|up_2|NZ_AP012331.1_1674351_1674957_+	cd03424, ADPRase_NUDT5, ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate	NA|481aa|up_1|NZ_AP012331.1_1675175_1676618_-	COG0469, PykF, Pyruvate kinase [Carbohydrate transport and metabolism]	NA|331aa|up_0|NZ_AP012331.1_1676777_1677770_-	TIGR03718, R_switched_Alx, integral membrane protein, TerC family	NA|202aa|down_0|NZ_AP012331.1_1680191_1680797_-	cd02022, DPCK, Dephospho-coenzyme A kinase (DPCK, EC 2	NA|491aa|down_1|NZ_AP012331.1_1680917_1682390_-	PRK07899, rpsA, 30S ribosomal protein S1; Reviewed	NA|293aa|down_2|NZ_AP012331.1_1682645_1683524_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|401aa|down_3|NZ_AP012331.1_1683645_1684848_+	cd01020, TroA_b, Metal binding protein TroA_b	NA|309aa|down_4|NZ_AP012331.1_1685212_1686139_+	cd03235, ABC_Metallic_Cations, ATP-binding cassette domain of the metal-type transporters	NA|279aa|down_5|NZ_AP012331.1_1686135_1686972_+	COG1108, ZnuB, ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]	NA|163aa|down_6|NZ_AP012331.1_1687184_1687673_-	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|199aa|down_7|NZ_AP012331.1_1687696_1688293_-	COG1329, COG1329, Transcriptional regulators, similar to M	NA|752aa|down_8|NZ_AP012331.1_1688431_1690687_+	PRK05402, PRK05402, 1,4-alpha-glucan branching protein GlgB	NA|240aa|down_9|NZ_AP012331.1_1690700_1691420_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	5	1696503-1696666	5	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	ACGATGCCGATGATGCCGAGCACGAG	26	0	0	NA	NA	NA	2	2	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA|58aa|up_1|NZ_AP012331.1_1695242_1695416_+,NA|512aa|down_0|NZ_AP012331.1_1697540_1699076_-	NA|163aa|up_9|NZ_AP012331.1_1687184_1687673_-	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed	NA|199aa|up_8|NZ_AP012331.1_1687696_1688293_-	COG1329, COG1329, Transcriptional regulators, similar to M	NA|752aa|up_7|NZ_AP012331.1_1688431_1690687_+	PRK05402, PRK05402, 1,4-alpha-glucan branching protein GlgB	NA|240aa|up_6|NZ_AP012331.1_1690700_1691420_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|361aa|up_5|NZ_AP012331.1_1691424_1692507_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|226aa|up_4|NZ_AP012331.1_1692594_1693272_-	COG1040, ComFC, Predicted amidophosphoribosyltransferases [General function prediction only]	NA|260aa|up_3|NZ_AP012331.1_1693274_1694054_-	cd02585, HAD_PMM, phosphomannomutase, similar to human PMM1 and PMM2, Saccharomyces Sec53p, and Arabidopsis thaliana PMM	NA|143aa|up_2|NZ_AP012331.1_1694189_1694618_+	cd12954, MMP_TTHA0227_like_1, Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria	NA|58aa|up_1|NZ_AP012331.1_1695242_1695416_+	NA	NA|154aa|up_0|NZ_AP012331.1_1695492_1695954_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|512aa|down_0|NZ_AP012331.1_1697540_1699076_-	NA	NA|1071aa|down_1|NZ_AP012331.1_1699072_1702285_-	COG1216, COG1216, Predicted glycosyltransferases [General function prediction only]	NA|103aa|down_2|NZ_AP012331.1_1702317_1702626_-	pfam02467, Whib, Transcription factor WhiB	NA|495aa|down_3|NZ_AP012331.1_1702913_1704398_+	pfam03816, LytR_cpsA_psr, Cell envelope-related transcriptional attenuator domain	NA|598aa|down_4|NZ_AP012331.1_1704721_1706515_+	TIGR03928, T7_EssCb_Firm, type VII secretion protein EssC, C-terminal domain	NA|92aa|down_5|NZ_AP012331.1_1706603_1706879_+	pfam02467, Whib, Transcription factor WhiB	NA|496aa|down_6|NZ_AP012331.1_1707060_1708548_-	pfam12282, H_kinase_N, Signal transduction histidine kinase	NA|297aa|down_7|NZ_AP012331.1_1708729_1709620_+	pfam03006, HlyIII, Haemolysin-III related	NA|161aa|down_8|NZ_AP012331.1_1709809_1710292_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|135aa|down_9|NZ_AP012331.1_1710439_1710844_-	COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	6	2306946-2308803	1,1,6,2	CRT,PILER-CR,CRISPRCasFinder,PILER-CR	no	cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Type I-E	CGGATCATCCCCGCGCGTGCGGGGCCAACNN,ACGGATCATCCCCGCGCGTGCGGGGCCAACC,CGGATCATCCCCGCGCGTGCGGGGCCAAC,CGGATCATCCCCGCGCGTGCGGGGCCAAC	31,31,29,29	0	0	NA	NA	I-C,I-E,II-B:I-C,I-E,II-B:I-C,I-E,II-B:I-C,I-E,II-B	30,25,29,25	30	TypeI-E	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA,NA	NA|264aa|up_9|NZ_AP012331.1_2293996_2294788_-	PRK14829, PRK14829, undecaprenyl pyrophosphate synthase; Provisional	NA|243aa|up_8|NZ_AP012331.1_2294793_2295522_-	PRK00085, recO, DNA repair protein RecO; Reviewed	NA|576aa|up_7|NZ_AP012331.1_2295554_2297282_-	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|411aa|up_6|NZ_AP012331.1_2297278_2298511_-	PRK00366, ispG, flavodoxin-dependent (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase	NA|396aa|up_5|NZ_AP012331.1_2298540_2299728_-	PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional	NA|605aa|up_4|NZ_AP012331.1_2299724_2301539_-	TIGR03543, divI1A_rptt_fam, DivIVA domain repeat protein	NA|337aa|up_3|NZ_AP012331.1_2301947_2302958_-	COG3480, SdrC, Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]	NA|591aa|up_2|NZ_AP012331.1_2303021_2304794_+	pfam10103, Zincin_2, Zincin-like metallopeptidase	NA|163aa|up_1|NZ_AP012331.1_2304913_2305402_+	COG4894, COG4894, Uncharacterized conserved protein [Function unknown]	NA|142aa|up_0|NZ_AP012331.1_2306201_2306627_-	pfam11253, DUF3052, Protein of unknown function (DUF3052)	cas2|117aa|down_0|NZ_AP012331.1_2308909_2309260_-	pfam09707, Cas_Cas2CT1978, CRISPR-associated protein (Cas_Cas2CT1978)	cas1|364aa|down_1|NZ_AP012331.1_2309256_2310348_-	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas6e|231aa|down_2|NZ_AP012331.1_2310350_2311043_-	pfam08798, CRISPR_assoc, CRISPR associated protein	cas5|283aa|down_3|NZ_AP012331.1_2311039_2311888_-	cd09756, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|392aa|down_4|NZ_AP012331.1_2311890_2313066_-	pfam09344, Cas_CT1975, CT1975-like protein	cse2gr11|231aa|down_5|NZ_AP012331.1_2313149_2313842_-	pfam09485, CRISPR_Cse2, CRISPR-associated protein Cse2 (CRISPR_cse2)	cas8e|564aa|down_6|NZ_AP012331.1_2313845_2315537_-	pfam09481, CRISPR_Cse1, CRISPR-associated protein Cse1 (CRISPR_cse1)	cas3|1046aa|down_7|NZ_AP012331.1_2315529_2318667_-	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	NA|197aa|down_8|NZ_AP012331.1_2318955_2319546_+	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|269aa|down_9|NZ_AP012331.1_2319748_2320555_-	PRK08226, PRK08226, SDR family oxidoreductase UcpA
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	7	2322487-2324791	2,7,3	CRT,CRISPRCasFinder,PILER-CR	no	cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Type I-E	CGGATCATCCCCGCGCATGCGGGGTAAAC,CGGATCATCCCCGCGCATGCGGGGTAAAC,CGGATCATCCCCGCGCATGCGGGGTAAAC	29,29,29	0	0	NA	NA	I-C,I-E,II-B:I-C,I-E,II-B:I-C,I-E,II-B	37,36,13	37	TypeI-E	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA,NA	cas1|364aa|up_9|NZ_AP012331.1_2309256_2310348_-	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI	cas6e|231aa|up_8|NZ_AP012331.1_2310350_2311043_-	pfam08798, CRISPR_assoc, CRISPR associated protein	cas5|283aa|up_7|NZ_AP012331.1_2311039_2311888_-	cd09756, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|392aa|up_6|NZ_AP012331.1_2311890_2313066_-	pfam09344, Cas_CT1975, CT1975-like protein	cse2gr11|231aa|up_5|NZ_AP012331.1_2313149_2313842_-	pfam09485, CRISPR_Cse2, CRISPR-associated protein Cse2 (CRISPR_cse2)	cas8e|564aa|up_4|NZ_AP012331.1_2313845_2315537_-	pfam09481, CRISPR_Cse1, CRISPR-associated protein Cse1 (CRISPR_cse1)	cas3|1046aa|up_3|NZ_AP012331.1_2315529_2318667_-	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3	NA|197aa|up_2|NZ_AP012331.1_2318955_2319546_+	COG1225, Bcp, Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]	NA|269aa|up_1|NZ_AP012331.1_2319748_2320555_-	PRK08226, PRK08226, SDR family oxidoreductase UcpA	NA|500aa|up_0|NZ_AP012331.1_2320583_2322083_-	COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]	NA|1108aa|down_0|NZ_AP012331.1_2325141_2328465_-	PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed	NA|327aa|down_1|NZ_AP012331.1_2328979_2329960_-	cd01174, ribokinase, Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP	NA|468aa|down_2|NZ_AP012331.1_2329999_2331403_-	cd17321, MFS_MMR_MDR_like, Methylenomycin A resistance protein (also called MMR peptide) and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|319aa|down_3|NZ_AP012331.1_2331555_2332512_-	cd02650, nuc_hydro_CaPnhB, NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB)	NA|289aa|down_4|NZ_AP012331.1_2333385_2334252_+	pfam09084, NMT1, NMT1/THI5 like	NA|275aa|down_5|NZ_AP012331.1_2334248_2335073_+	cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of the nitrate and sulfonate transporters	NA|258aa|down_6|NZ_AP012331.1_2335079_2335853_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|263aa|down_7|NZ_AP012331.1_2335849_2336638_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|364aa|down_8|NZ_AP012331.1_2336996_2338088_+	cd01299, Met_dep_hydrolase_A, Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site	NA|326aa|down_9|NZ_AP012331.1_2338192_2339170_-	cd01174, ribokinase, Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	8	2434965-2435058	8	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	ATCATGCTCCCGCTGGCGGGAGCTGGC	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA,NA|212aa|down_4|NZ_AP012331.1_2440288_2440924_-	NA|440aa|up_9|NZ_AP012331.1_2423193_2424513_+	TIGR00237, exodeoxyribonuclease_VII_large_subunit, exodeoxyribonuclease VII, large subunit	NA|109aa|up_8|NZ_AP012331.1_2424588_2424915_+	PRK00977, PRK00977, exodeoxyribonuclease VII small subunit; Provisional	NA|350aa|up_7|NZ_AP012331.1_2425083_2426133_-	pfam03372, Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family	NA|139aa|up_6|NZ_AP012331.1_2426590_2427007_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|244aa|up_5|NZ_AP012331.1_2427206_2427938_+	pfam07722, Peptidase_C26, Peptidase C26	NA|240aa|up_4|NZ_AP012331.1_2428419_2429139_+	pfam14335, DUF4391, Domain of unknown function (DUF4391)	NA|503aa|up_3|NZ_AP012331.1_2429343_2430852_+	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated	NA|326aa|up_2|NZ_AP012331.1_2430848_2431826_+	pfam10128, OpcA_G6PD_assem, Glucose-6-phosphate dehydrogenase subunit	NA|269aa|up_1|NZ_AP012331.1_2431947_2432754_+	pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase	NA|622aa|up_0|NZ_AP012331.1_2432897_2434763_-	pfam06541, ABC_trans_CmpB, Putative ABC-transporter type IV	NA|483aa|down_0|NZ_AP012331.1_2435368_2436817_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|398aa|down_1|NZ_AP012331.1_2436937_2438131_-	PRK07337, PRK07337, pyridoxal phosphate-dependent aminotransferase	NA|175aa|down_2|NZ_AP012331.1_2438138_2438663_-	cd00221, Vsr, Very Short Patch Repair (Vsr) Endonuclease	NA|351aa|down_3|NZ_AP012331.1_2439011_2440064_+	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only]	NA|212aa|down_4|NZ_AP012331.1_2440288_2440924_-	NA	NA|492aa|down_5|NZ_AP012331.1_2441052_2442528_-	cd06131, DNA_pol_III_epsilon_Ecoli_like, DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins	NA|218aa|down_6|NZ_AP012331.1_2442812_2443466_-	PRK00150, def, peptide deformylase; Reviewed	NA|462aa|down_7|NZ_AP012331.1_2443545_2444931_-	PRK14318, glmM, phosphoglucosamine mutase; Provisional	NA|182aa|down_8|NZ_AP012331.1_2445314_2445860_+	pfam16875, Glyco_hydro_36N, Glycosyl hydrolase family 36 N-terminal domain	NA|351aa|down_9|NZ_AP012331.1_2445982_2447035_+	pfam02065, Melibiase, Melibiase
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	9	2524408-2524504	9	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	TCGTCGGAGTCGTCGGTTCCGTCGG	25	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA|145aa|up_3|NZ_AP012331.1_2519972_2520407_+,NA|96aa|up_2|NZ_AP012331.1_2520448_2520736_+,NA|439aa|down_3|NZ_AP012331.1_2530805_2532122_-	NA|135aa|up_9|NZ_AP012331.1_2513872_2514277_-	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|367aa|up_8|NZ_AP012331.1_2514455_2515556_-	COG2816, NPY1, NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]	NA|314aa|up_7|NZ_AP012331.1_2515656_2516598_-	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase	NA|209aa|up_6|NZ_AP012331.1_2516702_2517329_-	pfam16262, DUF4916, Domain of unknown function (DUF4916)	NA|122aa|up_5|NZ_AP012331.1_2517568_2517934_+	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|334aa|up_4|NZ_AP012331.1_2518484_2519486_+	COG3583, COG3583, Uncharacterized protein conserved in bacteria [Function unknown]	NA|145aa|up_3|NZ_AP012331.1_2519972_2520407_+	NA	NA|96aa|up_2|NZ_AP012331.1_2520448_2520736_+	NA	NA|380aa|up_1|NZ_AP012331.1_2520972_2522112_-	pfam07510, DUF1524, Protein of unknown function (DUF1524)	NA|586aa|up_0|NZ_AP012331.1_2522341_2524099_-	pfam13196, DUF4012, Protein of unknown function (DUF4012)	NA|133aa|down_0|NZ_AP012331.1_2526558_2526957_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|295aa|down_1|NZ_AP012331.1_2528535_2529420_-	smart00497, IENR1, Intron encoded nuclease repeat motif	NA|171aa|down_2|NZ_AP012331.1_2530273_2530786_-	cd03424, ADPRase_NUDT5, ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate	NA|439aa|down_3|NZ_AP012331.1_2530805_2532122_-	NA	NA|341aa|down_4|NZ_AP012331.1_2532544_2533567_-	COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]	NA|473aa|down_5|NZ_AP012331.1_2533646_2535065_-	cd05387, BY-kinase, bacterial tyrosine-kinase	NA|374aa|down_6|NZ_AP012331.1_2535319_2536441_+	pfam04230, PS_pyruv_trans, Polysaccharide pyruvyl transferase	NA|476aa|down_7|NZ_AP012331.1_2536489_2537917_+	cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins	NA|595aa|down_8|NZ_AP012331.1_2539314_2541099_-	cd07037, TPP_PYR_MenD, Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate synthase (MenD) and related proteins	NA|336aa|down_9|NZ_AP012331.1_2541378_2542386_-	PRK10073, PRK10073, putative glycosyl transferase; Provisional
GCF_001042635.1_ASM104263v1	NZ_AP012331	Bifidobacterium scardovii JCM 12489 = DSM 13734 strain JCM 12489	10	2907128-2907235	10	CRISPRCasFinder	no		DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	Orphan	CCAGCTCCCCTCATAGAGGGGAGC	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,WYL,cas3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e	NA|837aa|up_1|NZ_AP012331.1_2902838_2905349_-,NA|337aa|up_0|NZ_AP012331.1_2905546_2906557_-,NA|172aa|down_8|NZ_AP012331.1_2918906_2919422_-	NA|461aa|up_9|NZ_AP012331.1_2892705_2894088_-	pfam04230, PS_pyruv_trans, Polysaccharide pyruvyl transferase	NA|282aa|up_8|NZ_AP012331.1_2894149_2894995_-	pfam01370, Epimerase, NAD dependent epimerase/dehydratase family	NA|425aa|up_7|NZ_AP012331.1_2895129_2896404_-	COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]	NA|279aa|up_6|NZ_AP012331.1_2896405_2897242_-	COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]	NA|339aa|up_5|NZ_AP012331.1_2897340_2898357_+	COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]	NA|474aa|up_4|NZ_AP012331.1_2898417_2899839_+	pfam04321, RmlD_sub_bind, RmlD substrate binding domain	NA|303aa|up_3|NZ_AP012331.1_2899835_2900744_+	TIGR01207, Glucose-1-phosphate_thymidylyltransferase_1, glucose-1-phosphate thymidylyltransferase, short form	NA|635aa|up_2|NZ_AP012331.1_2900872_2902777_-	cd06414, GH25_LytC-like, The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains	NA|837aa|up_1|NZ_AP012331.1_2902838_2905349_-	NA	NA|337aa|up_0|NZ_AP012331.1_2905546_2906557_-	NA	NA|738aa|down_0|NZ_AP012331.1_2907248_2909462_-	pfam13196, DUF4012, Protein of unknown function (DUF4012)	NA|447aa|down_1|NZ_AP012331.1_2909806_2911147_+	pfam02687, FtsX, FtsX-like permease family	NA|378aa|down_2|NZ_AP012331.1_2911143_2912277_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|232aa|down_3|NZ_AP012331.1_2912477_2913173_-	PRK12703, PRK12703, tRNA 2'-O-methylase; Reviewed	NA|290aa|down_4|NZ_AP012331.1_2913221_2914091_-	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|837aa|down_5|NZ_AP012331.1_2914161_2916672_-	pfam02705, K_trans, K+ potassium transporter	NA|319aa|down_6|NZ_AP012331.1_2916956_2917913_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|286aa|down_7|NZ_AP012331.1_2918052_2918910_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|172aa|down_8|NZ_AP012331.1_2918906_2919422_-	NA	NA|323aa|down_9|NZ_AP012331.1_2919507_2920476_-	cd09004, GH43_bXyl-like, Glycosyl hydrolase family 43 protein such as Bacteroides thetaiotaomicron VPI-5482 alpha-L-arabinofuranosidases (BT3675;BT_3675) and (BT3662;BT_3662); includes mostly xylanases
