Array 1 1897150-1895866 **** Predicted by CRISPRDetect 2.4 *** >NZ_MMXH01000003.1 Mycobacterium tuberculosis strain 02-R0328 02-R0328_contig3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 1897149 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 1897075 36 100.0 38 .................................... CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 1897001 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 1896929 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 1896857 36 100.0 37 .................................... TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCC 1896784 36 100.0 37 .................................... AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 1896711 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 1896637 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 1896564 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 1896493 36 100.0 40 .................................... CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG 1896417 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 1896343 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 1896272 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 1896200 36 97.2 37 ......G............................. TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 1896127 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 1896051 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 1895975 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 1895901 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================== ================== 18 36 99.5 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GGCCACCTCCATGGTCCTCGACGCGATCGAGCAAGCCATCTGGACCCGCCAACAAGAAGGCGTACTCGACCTGAAAGACGTTATCCACCATACGGATAGGGGATCTCAGTACACATCGATCCGGTTCAGCGAGCGGCTCGCCGAGGCAGGCATCCAACCGTCGGTCGGAGCGGTCGGAAGCTCCTATGACAATGCACTAGCCGAGACGATCAACGGCCTATACAAGACCGAGCTGATCAAACCCGGCAAGCCCTGGCGGTCCATCGAGGATGTCGAGTTGGCCACCGCGCGCTGGGTCGACTGGTTCAACCATCGCCGCCTCTACCAGTACTGCGGCGACGTCCCGCCGGTCGAACTCGAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCACCCCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [38.3-33.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.15 Confidence: HIGH] # Array family : NA // Array 2 1898803-1898543 **** Predicted by CRISPRDetect 2.4 *** >NZ_MMXH01000003.1 Mycobacterium tuberculosis strain 02-R0328 02-R0328_contig3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 1898802 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 1898729 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 1898654 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 1898578 35 75.0 0 ...................T..-.CC.CC...C.TG | C [1898547] ========== ====== ====== ====== ==================================== ======================================== ================== 4 36 93.8 39 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : TGGT # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAGCTGCGTGAGCGGGCGGTGCGGATGGTCGCAGAGATCCGCGGTCAGCACGATTCGGAGTGGGCAGCGATCAGTGAGGTCGCCCGTCTACTTGGTGTTGGCTGCGCGGAGACGGTGCGTAAGTGGGTGCGCCAGGCGCAGGTCGATGCCGGCGCACGGCCCGGGACCACGACCGAAGAATCCGCTGAGCTGAAGCGCTTGCGGCGGGACAACGCCGAATTGCGAAGGGCGAACGCGATTTTAAAGACCGCGTCGGCTTTCTTCGCGGCCGAGCTCGACCGGCCAGCACGCTAATTACCCGGTTCATCGCCGATCATCAGGGCCACCGCGAGGGCCCCGATGGTTTGCGGTGGGGTGTCGAGTCGATCTGCACACAGCTGACCGAGCTGGGTGTGCCGATCGCCCCATCGACCTACTACGACCACATCAACCG # Questionable array : NO Score: 5.55 # Score Detail : 1:0, 2:3, 3:0, 4:0.69, 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 : 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: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [46.7-3.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,1.15 Confidence: MEDIUM] # Array family : NA // Array 1 321-7 **** Predicted by CRISPRDetect 2.4 *** >NZ_MMXH01000004.1 Mycobacterium tuberculosis strain 02-R0328 02-R0328_contig4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== ============================================== ================== 320 31 100.0 46 ............................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGGGTCGT 243 31 100.0 30 ............................... CTTGAATAACGCGCAGTGAATTTCGCGGAT 182 31 100.0 41 ............................... ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCAGTCGT 110 31 100.0 42 ............................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCGGTCGT 37 31 100.0 0 ............................... | ========== ====== ====== ====== =============================== ============================================== ================== 5 31 100.0 40 CAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : CCGCATG # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 : CAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [0,12] 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: NA [3.3-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.74 Confidence: HIGH] # Array family : NA // Array 1 55-314 **** Predicted by CRISPRDetect 2.4 *** >NZ_MMXH01000005.1 Mycobacterium tuberculosis strain 02-R0328 02-R0328_contig5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================== ================== 55 37 100.0 35 ..................................... TTGGTCAAAAGCTGTCGCCCAAGCATGAGGCAAAA 127 37 100.0 40 ..................................... ACGACTAGGGGAGCGTGATCCAGAGCCGGCGACCCTCTAT 204 37 97.3 37 G.................................... GTGCAAGAATTCCGGGTTGCAGTGCAACACGGTTTTA 278 37 100.0 0 ..................................... | ========== ====== ====== ====== ===================================== ======================================== ================== 4 37 99.3 38 AGTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC # Left flank : CGGGGTTTTGGGTCTGACGACTAGAAGGCGATCACTGGAAGCACGGCGCTTGCGA # Right flank : CTCTATGGACAATTCGTCCAGCGTGTGGTAACAATGCCTGCTGATGATGTCAAAAGAACACAAACTCCTCTGCGCTGACAAGCCGTCCCCTTCCGTAGAACGTAACTGCCGCAACACCTCTTATCTTATAGATCCGGATGTTGTCGCAGTCGATGGCGAAGCGGTCGATACGTGCAACTAGTTTCGCGAGCTGGCCCTTCGTCAGCATCGCTTCGAATGCGGACTCTTGGACGCGATAGCCAAACCCGGCCAGGATCTTCGCAAGTGAAGCCCGCCGCCGGTTGTCGCTGATGTCGTATATTACGAGGACGAACATCTTGCCTATAGTGCCGCTGGACTCGTCCACTTTGAGCGGGAGATTGAAGTACTCCTCACGGCTGCGAGTGGGCATTTAGGCTCCGGATGGCTCGGAGGTGATATCGATATCGACGAGCCGCGACGGGTGCCCGGCTTCGATAACACGCACGAGGCTTTGCAGTTGCAAGTCGAGGGCGTACTGA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : AGTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC # 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 [3,12] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-8.80,-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: R [35.0-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.78,0.64 Confidence: LOW] # Array family : NA //