Array 1 34-419 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000052.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 34 29 100.0 32 ............................. ACAACCGACGCGAAGAAGGCTGCCGAGAATGC 95 29 100.0 32 ............................. GACAGCGGGAACATACAGGTCTTCGACAGCGA 156 29 100.0 32 ............................. CTTTGCCACACATCCAATTGGATGTTGAGTTG 217 27 93.1 32 ...........--................ GTCGAGCAATCGGCCACGCACCTCGAACTGCT 276 29 100.0 27 ............................. AAGCGAGGATACCCCCCCAATGGCGGC 332 29 100.0 32 ............................. GCCGCTCAGGCGCAGCTCGGCACCTTCGCGCT 393 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 7 29 98.0 31 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : NNNNNNAGAAGGCACCAAATACGTCAACCCAGAG # Right flank : | # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [23.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-891 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000051.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1 28 96.6 32 -............................ GCCTACCCATCGACACCGGCGAAATGCTCAAC 61 29 100.0 32 ............................. AAGTACGGCCAGCCTGCCGTCACCCCGCAGAA 122 29 100.0 32 ............................. GACTAGTGCTAGACACGCGCACGCCCCGCCGG 183 29 100.0 32 ............................. TCCGACGCGGCTTCGGCCAAATCGGACGCTTC 244 29 96.6 32 .................T........... ACGGCTTTGCAGGACAATACGGCCAAGCTCGA 305 29 100.0 32 ............................. GTATGGTTCTTCGAGTGGGCTTCGGCATACGC 366 29 89.7 37 ..........................NNN NNNNNNNTTTGGAATCCGATATTCCCGGCACCACCTG 432 29 100.0 32 ............................. TTCACGTCGAACGGGATCACGACGCTGATCTG 493 29 93.1 32 ...........................NN NNNNNNNNCATCGGGTTGTCGGGAAGCGCGTT 554 29 100.0 32 ............................. GGCAGAGTGACGGTGACGGCGGACGCGCTGGA 615 29 93.1 37 ...........................NN NNNNNNNNACCGCGTTGGCCAGCTGCCAGCCCACGAG 681 29 100.0 32 ............................. ATGGCGATGAAGACGATCAGGGCTGTCAGGTA 742 29 100.0 32 ............................. GACGAGAAAGCCAATCCGTATGCGGTGGACGT 803 29 100.0 32 ............................. TACAGGCCGTCGGCGACGGCGCGCGTATGCCA 864 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ===================================== ================== 15 29 97.7 33 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : | # Right flank : | # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 39-255 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000053.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 39 29 93.1 37 ...........................NN NNNNNNNNAGGCAGCCTCCCCGGTACCCGTACGACGC 105 29 100.0 32 ............................. AATCCCAGCACATGCGAAGAAAGGAAGAAAGA 166 29 100.0 32 ............................. TACTTGCGCTGCTGTCTCTCCAGATGCTCGAT 227 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 98.3 34 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : NNNNNNNNNNNGGCTGGCGGGCTTGGGTTGGCCGCGTAG # Right flank : | # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [11.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 241023-241670 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000080.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 241023 29 100.0 32 ............................. CCGCCACGTTCTCCTACCCTGCTCGTCCACGG 241084 29 100.0 32 ............................. GCTTTGGGATTTTGAGCATAGTTTTCGACCAG 241145 29 89.7 37 ..........................NNN NNNNNNNGATGCGTTCGATGGTCTTGGATACGAGGCC 241211 29 100.0 32 ............................. CAAATCACCGAAACGTTTTTGGGAAAGCTCAG 241272 29 82.8 33 ........................NNNNN NNNNNGGGACACGGCGTTAGCGCCGTTCGCGGA 241334 29 89.7 35 ..........................NNN NNNNNNNTCCAGCAGATGATAATACATCCCGTCAA 241398 29 100.0 32 ............................. GAGACACAATCATGGCACTCACTGACGACGAC 241459 29 100.0 32 ............................. GATGGCGTGTGGGGCACGTTCAACATCCGCGG 241520 29 100.0 32 ............................. TATCAGCCAACGCCATCGCGTCAACCAGCATA 241581 29 100.0 32 ............................. CGCGACCGACTACCAGCATGATTCCAGTAATT 241642 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 96.6 33 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : ATAGGGCAATCGAGCAAACAAGCAGAAGCATAGGGGCTCATAATGATTGTTATCGTACTTACAGTGTCCCCTCCGAAGCTGCGTGGACACTTAACGCGTTGGCTGTTTGAGATATCCCCTGGTGTCTATGTAGGCAAAGCTTCTGCTCGTGTTCGGGAGCTGCTGTGGCAGCAGATATTGGAGAATATCAGCGAAGGGCGTGCCGTCATGGTGTACTCTTCCAATAACGAACAAGGTTTGGATTTCAGAACACATGGGCAAGAATGGGAGCCAGTGGATTATGATGGATTAAAGTTGATTATGCGACCAAACTCAAGTCAAAAGCAGAAGCGTAATGGAGTTTTGAAAACCAAGAAAAAGACTGGTTGGAGTAGTGCCTCTCGATATAGGCGTTTTGGCCGATGACTGGAAGCAGGAACAATAGCACGAAGATTGGAGCCACTGTGCGAATCCAATTATTGAGGGTCCAGCGCTCAAGAGTTTTCGCATAAAATCGGACT # Right flank : AGCGCGCACCCGTATTCGCACAGGCACATCTCGTTTGCCCCGCACGCGCGGGGATGATNNNNNNNNNNAGGTACTTGTTCTCCGTGCCAGTTTCCTCGGATCATCCCCGCGCGTGCGGGGCAAA # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : GTTTGCCCCGCACGCGCGGGGATGATNNN # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [55.0-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.14,0.78 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 530-64 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000082.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 529 26 89.7 32 ---.......................... GACAATCCCACCGTCAACTCCGCCCTCGGCAG 471 29 100.0 37 ............................. ACCTGTTTATGGGCATGTGGGGAAGCGGNNNNNNNNN 405 29 96.6 32 N............................ GCGATGGCGTTGGCTTCCGCATTCTTGCTCAG 344 29 100.0 35 ............................. AGCTTGCCCACACGAAACCCATCGACATNNNNNNN 280 29 89.7 37 NNN.......................... ACGTTCATGGGGATGGTCGGCTGCGTGTCGNNNNNNN 214 29 89.7 32 NNN.......................... GTATCGGCCGTGTAAACAGACTGCCCGCCATG 153 29 100.0 32 ............................. AAGTACGGCCAGCCTGCCGTCACCCCGCAGAA 92 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 8 29 95.7 34 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : | # Right flank : GGATGTGCTCGACAGTCTTGATAAGGAGCATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [3,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-2.40,-3.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [26.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 761-42 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000083.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 760 29 100.0 36 ............................. TGGCCCGCGCGGCCTCGGTCAACCGCATGNNNNNNN 695 29 89.7 36 NNN.......................... TTCCGTGCCGTCTGCGAGCTGCTGGCGTNNNNNNNN 630 29 93.1 33 NN........................... GGCGCGACTTGCTATGAGATGTGCAAGNNNNNN 568 29 86.2 32 NNNN......................... GTGCGCACGATGGGCGCGTCCTTGTCGTAGTC 507 29 100.0 32 ............................. GTGTTCGAATTCCATATCGAACCCGCGTCCAG 446 29 100.0 32 ............................. GCCTTGACGTTCGCGCCCGCGTGCACGGCCAG 385 29 100.0 41 ............................. ACGTAAGGTCGTGAGGCGTCGCGCTGGCCNNNNNNNNNNNN 315 29 93.1 32 NN........................... CTTATGTATCTGACTTACGACGAAGCTATCAG 254 29 100.0 32 ............................. GAAGCGGTCGACCAATCTCAGGCCGCGTCGAA 193 29 100.0 33 ............................. AGCGGCATGTCCGATATCACCGCGACCCTGTTC 131 29 100.0 32 ............................. GCCCCAATACGGGCGTCGGAGCCTCGCCCTTC 70 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================= ================== 12 29 96.8 34 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : CATCCCCGCGCGTGCGGGGCAAACTCGGCGGTCTTCTTGATATTGTCGATGGNNNNNNNNNNNNNNNNATCATCCCCGCGCGTGCGGGGCAAACTTCGCCGTGCTGTCCCCATGCAATCGGGTCTTCGGATCATCCCCGCGCGTGCGGGGCAAACCCGCAGGTCATCGCCGCACTGAATGTGGAAGCAGGATCATCCCCGCGCGTGCGGGGCAAACTTCAGCATCTCACCTGTGTCGATGGGCAGGCCCGGATCATCCCCGCGCGTGCGGGGCAAACGAGACGCTTTTTCCACGTAATTATTCGNNNNNNNNNNGGATCATCCCCGCGCGTGCGGGGCAAACGTAAACTGGCTGGTCGCCCCATCCAGCATGTACGGATCATCCCCGCGCGTGCGGGGCAAACCATCGCCGACGGCGACAACAAGGGCAAGAGNNNNNNNNNNGCCCCGCACGCGCGGGGATGATCCGGCAACGGGAATCAGGCCGTCACCGATGACGAC # Right flank : GGCACACCAAATGACTGCGAATGACACNNNNNNNNNNNNNNN # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.10,-12.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [21.7-28.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.78,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 858-1386 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKOD010000083.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================= ================== 858 29 100.0 32 ............................. TACATGCTGGATGGGGCGACCAGCCAGTTTAC 919 29 96.6 36 ............................N NNNNNNNNNCGAATAATTACGTGGAAAAAGCGTCTC 984 29 100.0 32 ............................. GGCCTGCCCATCGACACAGGTGAGATGCTGAA 1045 29 96.6 32 ............................T GCTTCCACATTCAGTGCGGCGATGACCTGCGG 1106 29 100.0 32 ............................. AAGACCCGATTGCATGGGGACAGCACGGCGAA 1167 29 89.7 41 ..........................NNN NNNNNNNNNNNNNCCATCGACAATATCAAGAAGACCGCCGA 1237 29 100.0 32 ............................. TGCCCTCAACGCCATCCGATGGTCTGGTCAAC 1298 29 100.0 32 ............................. ACCTTCCAGCCTTCGGCAGGTTTTGGCACGTG 1359 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ========================================= ================== 9 29 97.7 34 GTTTGCCCCGCACGCGCGGGGATGATCCG # Left flank : GGATCATCCCCGCGCGTGCGGGGCAAACCTGGCCGTGCACGCGGGCGCGAACGTCAAGGCCGGATCATCCCCGCGCGTGCGGGGCAAACCTGGACGCGGGTTCGATATGGAATTCGAACACCGGATCATCCCCGCGCGTGCGGGGCAAACGACTACGACAAGGACGCGCCCATCGTGCGCACCGGATCATCCCCGCGCGTGCGGGGCNNNNNNNNNNCTTGCACATCTCATAGCAAGTCGCGCCCGGATCATCCCCGCGCGTGCGGGGCAANNNNNNNNNNACGCCAGCAGCTCGCAGACGGCACGGAACGGATCATCCCCGCGCGTGCGGGGCANNNNNNNNNNCATGCGGTTGACCGAGGCCGCGCGGGCCACGGATCATCCCCGCGCGTGCGGGGCAAACGTCGTCATCGGTGACGGCCTGATTCCCGTTGCCGGATCATCCCCGCGCGTGCGGGGCNNNNNNNNNNCTCTTGCCCTTGTTGTCGCCGTCGGCGATG # Right flank : | # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTGCCCCGCACGCGCGGGGATGATCCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTTTGCCCCGCACGCGCGGGGATGATCCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-12.70,-12.10] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [23.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0.37 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //