Array 1 724-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKNS010000057.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ====================================================== ================== 723 27 81.8 38 ------........................... CACGACCAATCTCCTTCGCGACCCCGGGAGCAANNNNN 658 33 84.8 35 NNNNN............................ AACGATTTGCGGGACACCCCGTTGGAATCGTATTC 590 33 100.0 33 ................................. AATGAACTCGACCTTGCATGGCGGTTTCGGCCG 524 33 100.0 35 ................................. GCGAGAGAGTGTCGGTGTTTACTCCCGGTCACNNN 456 33 78.8 34 NNNNNNN.......................... TGGTCCCCCTTGCGGATCAGACGCATCTGTTCGA 389 33 100.0 36 ................................. CGGCTATGATGGTGCTTTGGTGAGCGTGCCCNNNNN 320 33 84.8 35 NNNNN............................ TCAGATTCTCAACATGATTCGAAACGAGGCATCCC 252 33 100.0 35 ................................. TTGACGGTGACGTTCTGCCCGTGCCAAGCGGTGCC 184 33 100.0 54 ................................. GCCTTGTACGTGTTCGTGAACGTGGTCGGATTGTTTGTGTTCAATGTGAGNNNN 97 33 81.8 36 NNNNNN........................... TTCACGTCATGGTCGGGGTCGGACGCGTCCCCGATG 28 28 84.8 0 ............................----- | ========== ====== ====== ====== ================================= ====================================================== ================== 11 33 90.6 37 GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Left flank : | # Right flank : T # Questionable array : NO Score: 8.72 # Score Detail : 1:0, 2:3, 3:3, 4:0.53, 5:0, 6:0.25, 7:-0.06, 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 : GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Alternate repeat : NNNACCCCTCACGGGGTGCGTGGATTGAAAT # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: NA [6,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTCGCACCTCTCGCGGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-4.00,-5.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [5-9] 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: R [0.41,9.37 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 333-33 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKNS010000058.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ================================== ================== 332 33 100.0 34 ................................. ATGGCTGAGTGTGAACGGCTCTCGGGCGGTGTGC 265 33 100.0 34 ................................. ACGGTCATCGACAATGACGGCATCCTGCACNNNN 198 33 81.8 34 NNNNNN........................... CACATGACGTCAATCATCGTGCAACGGAGTTGGT 131 33 100.0 33 ................................. CTCGCGGCGCAGGAACCCGCCATCCGTGAACAC 65 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= ================================== ================== 5 33 96.4 34 GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Left flank : CACCCCTCACGGGGTGCGTGGATTGAAATTAGCGAATCAAGGGAAGATCATATCATGGCTT # Right flank : TGCTGATGTCCGTGTCCAGGCAGTCCGTCACAN # Questionable array : NO Score: 8.88 # Score Detail : 1:0, 2:3, 3:3, 4:0.82, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 : GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: F [7,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTCGCACCTCTCGCGGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-8.90,-8.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [20.0-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.74,9.27 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 45935-46444 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKNS010000066.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ====================================== ================== 45935 33 100.0 34 ................................. ACGTAGGCGATGCGGGTCATGTCGGCGGCGTTTG 46002 33 100.0 35 ................................. ACGTTGCCCGACGTTGATTACGGCAACGCGGCGAC 46070 33 84.8 38 ............................NNNNN NNNNNTTAGGTGGTGTGGGGCGGAGACACGCCGTGCAA 46141 33 100.0 33 ................................. CCGATTGTGGCTTGCGGTGCGATGGCGTGGTTT 46207 33 87.9 36 .............................NNNN NNNNNNCGCATTATACGCATACACTCCAGTAATACC 46276 33 100.0 35 ................................. ATCTACGCTAACCGTGCCCGCACGCCGCTCATTCC 46344 33 81.8 35 ...........................NNNNNN NNNNACCTCCGTGCGTGCGGAGGCCCCGAGCACGA 46412 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= ====================================== ================== 8 33 94.3 35 GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Left flank : TGCGGAACGTGGCCAAGATTTGCATGAGATACGGTCAACGCGTGCAGAACAGCGTCTTCGAGTGCTCCGTATCGCCGTCCGATTACCTGATTCTGAAGCATGATTTGGCGGCGGTTATGGATGAGTCGCAAGACAGTCTTCGGTACTACAACCTCGGGGCGAAGTATTCCTCGAGGATCGAATATCGAGGAAGGCAGCGACATATACCTGTTGATGACGTGATGATGCTTTGATGCCGGATTGGTGTGTGGCGTGTGGATGTTGGTCGGTGCGAGCCCCAAGCTCTCATGAAATACTGGGCTGTTCGCACCACAGTTGAGGACTTTTGAAGACGGTGTATGTTCTTCTTGCTGTTTGATAACTCAAGAGTGGATGATTTGCTGGTATTTCGATTCGGCAGATTTGCGTATCTGGGGAGATGCGAGTGGGTTGTACAGTACAATCGATGCTAAGGAGTGGTCGGAGTGTCCGTATCTTGGGATGCGAAGTCCATTCCCGCG # Right flank : TGACACCGGAATGCAATACGGTACCCCGGAATACGGTCGCACCCCTCACGGGGTGCGTGGATTNNNNNNNNNNTGCCAGATAACCCAGCACGCCCGAGCACATTCCATTTCGATCCACGCACCCCGTGAGGGGTGCGACATCCGGTCGATCTGTGTTTTCTGCTCGTCGGTCATATTTCAATCCACGCACCCCGTGAGGGGNNNNNNNNNNNNNNNNNNNCGGGAATGGATTGCAGGGGTTGAAAAACTGGATTTCAATCCACGCACCCCGTGAGGGGNNNNNNNNNNCATCATCGACAATGACGGCATCCTGCACTGCGGTCGCACCCCTCACGGGGTGCGTGGATNNNNNNNNNNTGTTTTATTGGTTTTCGTTGTGTGTGGGGCAGGTCGCACCCCTCACGGGGTGCGTGGATTGAAATAATCCTCCGGCTTGGGAGAGTGCGACAAAGTAGGTCGCACCCCTCACGGGGTGCGTGGATTGAAATTCGGCGGCACCT # Questionable array : NO Score: 8.97 # Score Detail : 1:0, 2:3, 3:3, 4:0.71, 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 : GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # 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 [3,6] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTCGCACCTCTCGCGGGGTGCGTGGATTGAAAT with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-8.20,-8.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [45.0-40.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.74 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 2 46728-46550 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKNS010000066.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= ============================================ ================== 46727 33 100.0 44 ................................. CCAGTTTTTCAACCCCTGCAATCCATTCCCGNNNNNNNNNNNNN 46650 33 100.0 35 ................................. ATGACCGACGAGCAGAAAACACAGATCGACCGGAT 46582 33 78.8 0 GTCGCA.....................C..... | ========== ====== ====== ====== ================================= ============================================ ================== 3 33 92.9 40 NNNNNNCCCCTCACGGGGTGCGTGGATTGAAAT # Left flank : TGCTGCTGGGTAGTTTGCCGCGGCGCAAGTCGCACCCCTCACGGGGTGCGTGGATTGAAATGTCGAATAGCCCGGCTGACCTCGGTAGAGGGGTGTCGCACCCCTCACGGGGTGCGTGGATTGAAATTCCGGACAGGCCGGGCATCATCCTGCGGCATTCGTGTCGCACCCCTCACGGGGTGCGTGGATTGAAATCGCCAGGGCACGCCCCTCGTCAACGACGCGGCNNNNNNNNNNTCCACGCACCCCGTGAGGGGTGCGACCGGCGTCAGGGCCCTGACCCGAGGTGCCGCCGAATTTCAATCCACGCACCCCGTGAGGGGTGCGACCTACTTTGTCGCACTCTCCCAAGCCGGAGGATTATTTCAATCCACGCACCCCGTGAGGGGTGCGACCTGCCCCACACACAACGAAAACCAATAAAACANNNNNNNNNNATCCACGCACCCCGTGAGGGGTGCGACCGCAGTGCAGGATGCCGTCATTGTCGATGATGNNNN # Right flank : GGAATGTGCTCGGGCGTGCTGGGTTATCTGGCANNNNNNNNNNAATCCACGCACCCCGTGAGGGGTGCGACCGTATTCCGGGGTACCGTATTGCATTCCGGTGTCATTTCAATCCACGCACCCCGTGAGGGGTGCGACTCGTGCTCGGGGCCTCCGCACGCACGGAGGTNNNNNNNNNNATCCACGCACCCCGTGAGGGGTGCGACGGAATGAGCGGCGTGCGGGCACGGTTAGCGTAGATATTTCAATCCACGCACCCCGTGAGGGGTGCGACGGTATTACTGGAGTGTATGCGTATAATGCGNNNNNNNNNNCAATCCACGCACCCCGTGAGGGGTGCGACAAACCACGCCATCGCACCGCAAGCCACAATCGGATTTCAATCCACGCACCCCGTGAGGGGTGCGACTTGCACGGCGTGTCTCCGCCCCACACCACCTAANNNNNNNNNNAATCCACGCACCCCGTGAGGGGTGCGACGTCGCCGCGTTGCCGTAATC # Questionable array : NO Score: 8.01 # Score Detail : 1:0, 2:3, 3:3, 4:0.65, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 : NNNNNNCCCCTCACGGGGTGCGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: F [6,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTCGCATTGCTCACGCGGTGCGTGGATTGAAAT with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-2.40,-4.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [31.7-30.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,9.78 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 3 47200-47033 **** Predicted by CRISPRDetect 2.4 *** >NZ_CAAKNS010000066.1 Bifidobacterium longum isolate Bifidobacterium_longum_subsp_infantis_MC1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================= =================================== ================== 47199 33 100.0 33 ................................. GTCGAATAGCCCGGCTGACCTCGGTAGAGGGGT 47133 33 100.0 35 ................................. TCCGGACAGGCCGGGCATCATCCTGCGGCATTCGT 47065 33 100.0 0 ................................. | ========== ====== ====== ====== ================================= =================================== ================== 3 33 100.0 34 GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Left flank : CACCCCTCACGGGGTGCGTGGATTGAAATTTCCTTGGTTGAGCAGTTCCGCCGCTTGCAANNNNNNNNNNACCCCTCACGGGGTGCGTGGATTGAAATGATGGGTTTGCTGCTGGGTAGTTTGCCGCGGCGCA # Right flank : CGCCAGGGCACGCCCCTCGTCAACGACGCGGCNNNNNNNNNNTCCACGCACCCCGTGAGGGGTGCGACCGGCGTCAGGGCCCTGACCCGAGGTGCCGCCGAATTTCAATCCACGCACCCCGTGAGGGGTGCGACCTACTTTGTCGCACTCTCCCAAGCCGGAGGATTATTTCAATCCACGCACCCCGTGAGGGGTGCGACCTGCCCCACACACAACGAAAACCAATAAAACANNNNNNNNNNATCCACGCACCCCGTGAGGGGTGCGACCGCAGTGCAGGATGCCGTCATTGTCGATGATGNNNNNNNNNNCCCCTCACGGGGTGCGTGGATTGAAATCCAGTTTTTCAACCCCTGCAATCCATTCCCGNNNNNNNNNNNNNNNNNNNCCCCTCACGGGGTGCGTGGATTGAAATATGACCGACGAGCAGAAAACACAGATCGACCGGATGTCGCACCCCTCACGGGGTGCGTGGATCGAAATGGAATGTGCTCGGGCGT # Questionable array : NO Score: 8.67 # Score Detail : 1:0, 2:3, 3:3, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 : GTCGCACCCCTCACGGGGTGCGTGGATTGAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: R Score: 4.5/4.5 # A,T distribution in repeat prediction: F [8,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTCGCACCTCTCGCGGGGTGCGTGGATTGAAAT with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-15.40,-14.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [20.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [1.15,9.27 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], //