Array 1 246-68 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000129.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_134, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ===================================== ================== 245 34 94.4 37 --.................................. ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 174 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 103 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ===================================== ================== 3 36 98.1 36 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : CTACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGAC # Questionable array : NO Score: 5.26 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,0.74 Confidence: LOW] # Array family : NA // Array 1 520-34 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000130.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_135, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ========================================== ================== 519 37 100.0 36 ..................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGC 446 37 100.0 36 ..................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGC 373 37 100.0 36 ..................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGC 300 37 100.0 37 ..................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCC 226 37 97.3 40 T.................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACG 149 37 94.6 42 T...............................T.... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGA 70 37 100.0 0 ..................................... | ========== ====== ====== ====== ===================================== ========================================== ================== 7 37 98.8 38 AGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCCCGAGAGGGGACGGAAACTTTATCACTCCCGACCAAATAGGTATCGGCGTGTTC # Right flank : CGCGAGGAACCGTCCCACCTGGGCCTGCCCCCAG # Questionable array : NO Score: 6.00 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : AGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,13] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [13.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.42 Confidence: HIGH] # Array family : NA // Array 1 660-35 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000131.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_137, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 659 35 97.2 38 -................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 586 36 100.0 41 .................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGG 509 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 437 36 100.0 39 .................................... ACGACGTTAGGGCATGCAGCATGCCGTCCCCGTTTTTGA 362 36 100.0 35 .................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG 291 36 100.0 36 .................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACGT 219 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 146 36 100.0 40 .................................... TGCTCTTGAGCAACGCCATCATCCGGCGCCGCAGCTCCGC 70 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ========================================= ================== 9 36 99.7 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : CGCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCC # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [10.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,0.74 Confidence: LOW] # Array family : NA // Array 1 224-39 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000132.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_139, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 223 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 146 36 100.0 36 .................................... ATTTCGACGACAATTCGTTGACCACGAATTTTCAGA 74 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ========================================= ================== 3 36 100.0 39 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : CTTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [33.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.74 Confidence: MEDIUM] # Array family : NA // Array 1 216-37 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000133.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_140, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ==================================== ================== 215 35 97.2 36 -................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 144 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 72 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ==================================== ================== 3 36 99.1 36 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : CTCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [21.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,0.74 Confidence: LOW] # Array family : NA // Array 1 218-36 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000134.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_141, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ====================================== ================== 217 36 72.2 35 C..AC.G.GG.GGTC..................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA T [204] 145 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 71 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ====================================== ================== 3 36 90.7 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GTTCGCCTACGTGGCCTTTGTCACCGACGCCTACGCTCGCAGGATCCTGGGCTGGCGGGTCGCTTCCACGATGGCCACCTCCATGGTCCTCGACGCGATCGAGCAAGCCATCTGGACCCGCCAACAAGAAGGCGTACTCGACCTGAAAGACGTTATCCACCATACGGATAGGGGATCTCAGTACACATCGATCCGGTTCAGCGAGCGGCTCGCCGAGGCAGGCATCCAACCGTCGGTCGGAGCGGTCGGAAGCTCCTATGACAATGCACTAGCCGAGACGATCAACGGCCTATACAAGACCGAGCTGATCAAACCCGGCAAGCCCTGGCGGTCCATCGAGGATGTCGAGTTGGCCACCGCGCGCTGGGTCGACTGGTTCAACCATCGCCGCCTCTACCAGTACTGCGGCGACGTCCCGCCGGTCGAACTCGAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGA # Right flank : CCCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGT # Questionable array : NO Score: 4.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [21.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,1.01 Confidence: MEDIUM] # Array family : NA // Array 2 1801-1539 **** Predicted by CRISPRDetect 2.4 *** >NZ_AKYU01000134.1 Mycobacterium tuberculosis variant bovis BCG str. Prague Contig_141, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================= ================== 1800 37 94.6 39 C.........................A.......... TCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCG 1724 37 100.0 36 ..................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACA 1651 37 100.0 39 ..................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCG 1575 36 75.7 0 ....................T..-.CC.CC...C.TG | C [1543] ========== ====== ====== ====== ===================================== ======================================= ================== 4 37 92.6 38 AGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCCCGAGAGGGGACGGAAACTCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATC # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAGCTGCGTGAGCGGGCGGTGCGGATGGTCGCAGAGATCCGCGGTCAGCACGATTCGGAGTGGGCAGCGATCAGTGAGGTCGCCCGTCTACTTGGTGTTGGCTGCGCGGAGACGGTGCGTAAGTGGGTGCGCCAGGCGCAGGTCGATGCCGGCGCACGGCCCGGGACCACGACCGAAGAATCCGCTGAGCTGAAGCGCTTGCGGCGGGACAACGCCGAATTGCGAAGGGCGAACGCGATTTTAAAGACCGCGTCGGCTTTCTTCGCGGCCGAGCTCGACCGGCCAGCACGCTAATTACCCGGTTCATCGCCGATCATCAGGGCCACCGCGAGGGCCCCGATGGTTTGCGGTGGGGTGTCGAGTCGATCTGCACACAGCTGACCGAGCTGGGTGTGCCGATCGCCCCATCGACCTACTACGACCACATCAACCG # Questionable array : NO Score: 5.49 # Score Detail : 1:0, 2:3, 3:0, 4:0.63, 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 : AGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [2,13] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [-6.40,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [46.7-43.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.15 Confidence: HIGH] # Array family : NA //