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_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	1	108239-108543	1	CRISPRCasFinder	no		cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	Orphan	TCGGAACGACGGCGACGCGGACG	23	0	0	NA	NA	NA	5	5	Orphan	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA|57aa|up_5|NZ_CP053940.1_100266_100437_-,NA|229aa|down_1|NZ_CP053940.1_111504_112191_-,NA|225aa|down_2|NZ_CP053940.1_113271_113946_-	NA|78aa|up_9|NZ_CP053940.1_96980_97214_+	PRK02821, PRK02821, RNA-binding protein	NA|205aa|up_8|NZ_CP053940.1_97236_97851_+	PRK00122, rimM, 16S rRNA-processing protein RimM; Provisional	NA|352aa|up_7|NZ_CP053940.1_97925_98981_-	cd02650, nuc_hydro_CaPnhB, NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB)	NA|288aa|up_6|NZ_CP053940.1_99248_100112_-	cd19088, AKR_AKR13B1, AKR13B family of aldo-keto reductase (AKR)	NA|57aa|up_5|NZ_CP053940.1_100266_100437_-	NA	NA|81aa|up_4|NZ_CP053940.1_102312_102555_-	pfam09972, DUF2207, Predicted membrane protein (DUF2207)	NA|752aa|up_3|NZ_CP053940.1_102554_104810_-	pfam09972, DUF2207, Predicted membrane protein (DUF2207)	NA|196aa|up_2|NZ_CP053940.1_104875_105463_-	pfam04011, LemA, LemA family	NA|304aa|up_1|NZ_CP053940.1_105924_106836_+	NF012181, MSCRAMM_SdrD, MSCRAMM family adhesin SdrD	NA|237aa|up_0|NZ_CP053940.1_106973_107684_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|90aa|down_0|NZ_CP053940.1_111105_111375_-	PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	NA|229aa|down_1|NZ_CP053940.1_111504_112191_-	NA	NA|225aa|down_2|NZ_CP053940.1_113271_113946_-	NA	NA|516aa|down_3|NZ_CP053940.1_114053_115601_-	pfam17802, SpaA, Prealbumin-like fold domain	NA|1239aa|down_4|NZ_CP053940.1_115808_119525_-	cd00198, vWFA, Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)	NA|233aa|down_5|NZ_CP053940.1_121234_121933_+	COG0475, KefB, Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]	NA|150aa|down_6|NZ_CP053940.1_122618_123068_-	PRK00070, acpS, 4'-phosphopantetheinyl transferase; Provisional	NA|185aa|down_7|NZ_CP053940.1_123357_123912_+	COG0350, Ada, Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]	NA|446aa|down_8|NZ_CP053940.1_124142_125480_+	pfam11187, DUF2974, Protein of unknown function (DUF2974)	NA|222aa|down_9|NZ_CP053940.1_125551_126217_+	COG1309, AcrR, Transcriptional regulator [Transcription]
GCF_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	2	679304-679380	2	CRISPRCasFinder	no		cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	Orphan	CGGGGTGGTTCTTCGGTTGGTTGGG	25	0	0	NA	NA	NA	1	1	Orphan	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA,NA|116aa|down_9|NZ_CP053940.1_695641_695989_-	NA|916aa|up_9|NZ_CP053940.1_666921_669669_-	COG1511, COG1511, Predicted membrane protein [Function unknown]	NA|256aa|up_8|NZ_CP053940.1_669834_670602_-	cd02146, NfsA-like, nitroreductase similar to Escherichia coli NfsA	NA|126aa|up_7|NZ_CP053940.1_670697_671075_-	pfam14019, DUF4235, Protein of unknown function (DUF4235)	NA|238aa|up_6|NZ_CP053940.1_671146_671860_+	pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch 1)	NA|449aa|up_5|NZ_CP053940.1_672262_673609_+	pfam13416, SBP_bac_8, Bacterial extracellular solute-binding protein	NA|339aa|up_4|NZ_CP053940.1_673816_674833_-	COG1609, PurR, Transcriptional regulators [Transcription]	NA|285aa|up_3|NZ_CP053940.1_675203_676058_+	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]	NA|281aa|up_2|NZ_CP053940.1_676057_676900_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|202aa|up_1|NZ_CP053940.1_677051_677657_+	pfam04854, DUF624, Protein of unknown function, DUF624	NA|491aa|up_0|NZ_CP053940.1_677708_679181_-	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|234aa|down_0|NZ_CP053940.1_679662_680364_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|1226aa|down_1|NZ_CP053940.1_680454_684132_+	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|508aa|down_2|NZ_CP053940.1_684385_685909_+	COG1113, AnsP, Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]	NA|174aa|down_3|NZ_CP053940.1_686834_687356_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|623aa|down_4|NZ_CP053940.1_687539_689408_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|610aa|down_5|NZ_CP053940.1_689539_691369_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	NA|314aa|down_6|NZ_CP053940.1_691377_692319_-	pfam02424, ApbE, ApbE family	NA|473aa|down_7|NZ_CP053940.1_692423_693842_+	cd17332, MFS_MelB_like, Salmonella enterica Na+/melibiose symporter MelB and similar transporters of the Major Facilitator Superfamily	NA|340aa|down_8|NZ_CP053940.1_694501_695521_+	COG0313, COG0313, Predicted methyltransferases [General function prediction only]	NA|116aa|down_9|NZ_CP053940.1_695641_695989_-	NA
GCF_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	3	826873-827019	3	CRISPRCasFinder	no		cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	Orphan	CTTAGCGACAGGATTTTAGGAGATT	25	0	0	NA	NA	NA	2	2	Orphan	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA|318aa|up_0|NZ_CP053940.1_825804_826758_-,NA|700aa|down_3|NZ_CP053940.1_829723_831823_-	NA|1014aa|up_9|NZ_CP053940.1_814519_817561_+	TIGR00757, Ribonuclease_E/G-like_protein, ribonuclease, Rne/Rng family	NA|103aa|up_8|NZ_CP053940.1_817747_818056_+	PRK05573, rplU, 50S ribosomal protein L21; Validated	NA|84aa|up_7|NZ_CP053940.1_818078_818330_+	PRK05435, rpmA, 50S ribosomal protein L27; Validated	NA|564aa|up_6|NZ_CP053940.1_818396_820088_+	PRK12296, obgE, GTPase CgtA; Reviewed	NA|378aa|up_5|NZ_CP053940.1_820193_821327_+	PRK05429, PRK05429, gamma-glutamyl kinase; Provisional	NA|421aa|up_4|NZ_CP053940.1_821422_822685_-	cd10966, CE4_yadE_5s, Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins	NA|402aa|up_3|NZ_CP053940.1_822826_824032_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|76aa|up_2|NZ_CP053940.1_824361_824589_+	PRK07597, secE, preprotein translocase subunit SecE; Reviewed	NA|276aa|up_1|NZ_CP053940.1_824621_825449_+	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|318aa|up_0|NZ_CP053940.1_825804_826758_-	NA	NA|144aa|down_0|NZ_CP053940.1_827374_827806_+	PRK00140, rplK, 50S ribosomal protein L11; Validated	NA|231aa|down_1|NZ_CP053940.1_827821_828514_+	PRK05424, rplA, 50S ribosomal protein L1; Validated	NA|286aa|down_2|NZ_CP053940.1_828787_829645_-	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|700aa|down_3|NZ_CP053940.1_829723_831823_-	NA	NA|296aa|down_4|NZ_CP053940.1_832066_832954_+	COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]	NA|200aa|down_5|NZ_CP053940.1_832955_833555_-	pfam02632, BioY, BioY family	NA|627aa|down_6|NZ_CP053940.1_834067_835948_+	COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	NA|541aa|down_7|NZ_CP053940.1_835940_837563_+	COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]	NA|3161aa|down_8|NZ_CP053940.1_837602_847085_+	COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein]	NA|145aa|down_9|NZ_CP053940.1_847961_848396_-	COG0431, COG0431, Predicted flavoprotein [General function prediction only]
GCF_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	4	1183267-1186271	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no	cas5,cas8c,cas7,cas4,cas1,cas2	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	 Type I-U?,Type I-C,Type I-U	GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT,GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT,GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT	33,33,33	0	0	NA	NA	I-C:I-C:I-C	43,43,44	44	TypeI-U?,TypeI-C,TypeI-U	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA|119aa|up_8|NZ_CP053940.1_1172322_1172679_+,NA|78aa|up_0|NZ_CP053940.1_1182208_1182442_+,NA	NA|1103aa|up_9|NZ_CP053940.1_1168742_1172051_+	PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed	NA|119aa|up_8|NZ_CP053940.1_1172322_1172679_+	NA	NA|74aa|up_7|NZ_CP053940.1_1172769_1172991_+	pfam01610, DDE_Tnp_ISL3, Transposase	cas5|235aa|up_6|NZ_CP053940.1_1176114_1176819_+	cd09651, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas8c|653aa|up_5|NZ_CP053940.1_1176821_1178780_+	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1)	cas7|284aa|up_4|NZ_CP053940.1_1178783_1179635_+	cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas4|230aa|up_3|NZ_CP053940.1_1179673_1180363_+	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4	cas1|344aa|up_2|NZ_CP053940.1_1180364_1181396_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|97aa|up_1|NZ_CP053940.1_1181452_1181743_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|78aa|up_0|NZ_CP053940.1_1182208_1182442_+	NA	NA|254aa|down_0|NZ_CP053940.1_1188083_1188845_-	pfam01695, IstB_IS21, IstB-like ATP binding protein	NA|486aa|down_1|NZ_CP053940.1_1188841_1190299_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|407aa|down_2|NZ_CP053940.1_1192468_1193689_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|95aa|down_3|NZ_CP053940.1_1193974_1194259_-	PRK00392, rpoZ, DNA-directed RNA polymerase subunit omega; Reviewed	NA|621aa|down_4|NZ_CP053940.1_1194425_1196288_+	PRK12448, PRK12448, dihydroxy-acid dehydratase; Provisional	NA|338aa|down_5|NZ_CP053940.1_1196582_1197596_-	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|235aa|down_6|NZ_CP053940.1_1197734_1198439_-	cd02603, HAD_sEH-N_like, N-terminal lipase phosphatase domain of human soluble epoxide hydrolase, Escherichia coli YihX/HAD4 alpha-D-glucose 1-phosphate phosphatase, and related domains, may be inactive	NA|770aa|down_7|NZ_CP053940.1_1198683_1200993_-	PRK14873, PRK14873, primosomal protein N'	NA|241aa|down_8|NZ_CP053940.1_1201040_1201763_-	cd07500, HAD_PSP, phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces cerevisiae SER2p	NA|232aa|down_9|NZ_CP053940.1_1201813_1202509_+	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]
GCF_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	5	1190455-1191433	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	cas5,cas8c,cas7,cas4,cas1,cas2	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	 Type I-U?,Type I-C,Type I-U	GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT,GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT,GTCGCTCCCCATCCGGGGAGCGTGGATTGAAAT	33,33,33	0	0	NA	NA	I-C:I-C:I-C	13,14,14	14	TypeI-U?,TypeI-C,TypeI-U	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA|78aa|up_2|NZ_CP053940.1_1182208_1182442_+,NA	NA|74aa|up_9|NZ_CP053940.1_1172769_1172991_+	pfam01610, DDE_Tnp_ISL3, Transposase	cas5|235aa|up_8|NZ_CP053940.1_1176114_1176819_+	cd09651, Cas5_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas8c|653aa|up_7|NZ_CP053940.1_1176821_1178780_+	pfam09709, Cas_Csd1, CRISPR-associated protein (Cas_Csd1)	cas7|284aa|up_6|NZ_CP053940.1_1178783_1179635_+	cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas4|230aa|up_5|NZ_CP053940.1_1179673_1180363_+	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4	cas1|344aa|up_4|NZ_CP053940.1_1180364_1181396_+	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG	cas2|97aa|up_3|NZ_CP053940.1_1181452_1181743_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|78aa|up_2|NZ_CP053940.1_1182208_1182442_+	NA	NA|254aa|up_1|NZ_CP053940.1_1188083_1188845_-	pfam01695, IstB_IS21, IstB-like ATP binding protein	NA|486aa|up_0|NZ_CP053940.1_1188841_1190299_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|407aa|down_0|NZ_CP053940.1_1192468_1193689_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|95aa|down_1|NZ_CP053940.1_1193974_1194259_-	PRK00392, rpoZ, DNA-directed RNA polymerase subunit omega; Reviewed	NA|621aa|down_2|NZ_CP053940.1_1194425_1196288_+	PRK12448, PRK12448, dihydroxy-acid dehydratase; Provisional	NA|338aa|down_3|NZ_CP053940.1_1196582_1197596_-	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|235aa|down_4|NZ_CP053940.1_1197734_1198439_-	cd02603, HAD_sEH-N_like, N-terminal lipase phosphatase domain of human soluble epoxide hydrolase, Escherichia coli YihX/HAD4 alpha-D-glucose 1-phosphate phosphatase, and related domains, may be inactive	NA|770aa|down_5|NZ_CP053940.1_1198683_1200993_-	PRK14873, PRK14873, primosomal protein N'	NA|241aa|down_6|NZ_CP053940.1_1201040_1201763_-	cd07500, HAD_PSP, phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces cerevisiae SER2p	NA|232aa|down_7|NZ_CP053940.1_1201813_1202509_+	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown]	NA|525aa|down_8|NZ_CP053940.1_1202562_1204137_+	TIGR03689, pup_AAA, proteasome ATPase	NA|238aa|down_9|NZ_CP053940.1_1204196_1204910_-	cd02603, HAD_sEH-N_like, N-terminal lipase phosphatase domain of human soluble epoxide hydrolase, Escherichia coli YihX/HAD4 alpha-D-glucose 1-phosphate phosphatase, and related domains, may be inactive
GCF_013267755.1_ASM1326775v1	NZ_CP053940	Bifidobacterium breve strain JTL chromosome, complete genome	6	1635108-1635266	3	PILER-CR	no		cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	Orphan	ACTCCAAATCGCCCCTTTATACCTGCAATC	30	0	0	NA	NA	NA	2	2	Orphan	cas5,cas8c,cas7,cas4,cas1,cas2,WYL,cas3,DEDDh	NA|395aa|up_0|NZ_CP053940.1_1633849_1635034_+,NA	NA|678aa|up_9|NZ_CP053940.1_1620344_1622378_-	PRK12305, thrS, threonyl-tRNA synthetase; Reviewed	NA|278aa|up_8|NZ_CP053940.1_1623199_1624033_+	pfam09754, PAC2, PAC2 family	NA|295aa|up_7|NZ_CP053940.1_1624183_1625068_-	PRK12554, PRK12554, undecaprenyl pyrophosphate phosphatase; Reviewed	NA|264aa|up_6|NZ_CP053940.1_1625218_1626010_+	COG3001, COG3001, Uncharacterized protein conserved in bacteria [Function unknown]	NA|382aa|up_5|NZ_CP053940.1_1626149_1627295_-	PRK14278, PRK14278, chaperone protein DnaJ; Provisional	NA|366aa|up_4|NZ_CP053940.1_1627349_1628447_-	PRK00082, hrcA, heat-inducible transcription repressor; Provisional	NA|703aa|up_3|NZ_CP053940.1_1628707_1630816_+	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|368aa|up_2|NZ_CP053940.1_1630889_1631993_+	PRK03343, PRK03343, transaldolase; Validated	NA|446aa|up_1|NZ_CP053940.1_1632339_1633677_+	pfam05525, Branch_AA_trans, Branched-chain amino acid transport protein	NA|395aa|up_0|NZ_CP053940.1_1633849_1635034_+	NA	NA|411aa|down_0|NZ_CP053940.1_1635534_1636767_-	PRK13355, PRK13355, bifunctional HTH-domain containing protein/aminotransferase; Provisional	NA|284aa|down_1|NZ_CP053940.1_1637188_1638040_-	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|317aa|down_2|NZ_CP053940.1_1638036_1638987_-	cd05291, HicDH_like, L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases	NA|83aa|down_3|NZ_CP053940.1_1639078_1639327_-	PRK06870, secG, preprotein translocase subunit SecG; Reviewed	NA|268aa|down_4|NZ_CP053940.1_1639390_1640194_-	PRK00042, tpiA, triosephosphate isomerase; Provisional	NA|402aa|down_5|NZ_CP053940.1_1640344_1641550_-	PRK00073, pgk, phosphoglycerate kinase; Provisional	NA|317aa|down_6|NZ_CP053940.1_1641708_1642659_-	TIGR00647, DNA_bind_WhiA, DNA-binding protein WhiA	NA|322aa|down_7|NZ_CP053940.1_1642815_1643781_-	PRK05416, PRK05416, RNase adapter RapZ	NA|327aa|down_8|NZ_CP053940.1_1643780_1644761_-	PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed	NA|806aa|down_9|NZ_CP053940.1_1644996_1647414_-	PRK00558, uvrC, excinuclease ABC subunit UvrC
