Array 1 64458-63980 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQGH01000133.1 Mycobacterium tuberculosis strain VRF CWCF XDRTB 1028 Contig_133, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 64457 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 64386 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 64314 36 100.0 37 .................................... TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 64241 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 64165 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 64089 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 64015 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================== ================== 7 36 99.2 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [1-0] 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 [0.27,1.15 Confidence: MEDIUM] # Array family : NA // Array 1 261-5 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQGH01000134.1 Mycobacterium tuberculosis strain VRF CWCF XDRTB 1028 Contig_134, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 260 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 187 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 116 36 100.0 40 .................................... CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG 40 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================== ================== 4 36 100.0 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : A # Right flank : CTAGT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [5.0-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.74 Confidence: HIGH] # Array family : NA // Array 1 336-7 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQGH01000136.1 Mycobacterium tuberculosis strain VRF CWCF XDRTB 1028 Contig_136, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 335 36 100.0 38 .................................... TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC 261 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 184 36 100.0 36 .................................... TTTTTGCCTCATGCTTGGGCGACAGCTTTTGACCAA 112 36 100.0 34 .................................... TCGCAAGCGCCGTGCTTCCAGTGATCGCCTTCTA 42 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ========================================= ================== 5 36 100.0 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : TTCAGTACGCCCTCGACTTGCAACTGCAAAGCCTCGTGCGTGTTATCGAAGCCGGGCACCCGTCGCGGCTCGTCGATATCGATATCACCTCCGAGCCATCCGGAGCCTAAATGCCCACTCGCAGCCGTGAGGAGTACTTCAATCTCCCGCTCAAAGTGGACGAGTCCAGCGGCACTATAGGCAAGATGTTCGTCCTCGTAATATACGACATCAGCGACAACCGGCGGCGGGCTTCACTTGCGAAGATCCTGGCCGGGTTTGGCTATCGCGTCCAAGAGTCCGCATTCGAAGCGATGCTGACGAAGGGCCAGCTCGCGAAACTAGTTGCACGTATCGACCGCTTCGCCATCGACTGCGACAACATCCGGATCTATAAGATAAGAGGTGTTGCGGCAGTTACGTTCTACGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGA # Right flank : CAACACC # 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 : 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: R [5.0-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.01 Confidence: HIGH] # Array family : NA // Array 1 264-7 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQGH01000135.1 Mycobacterium tuberculosis strain VRF CWCF XDRTB 1028 Contig_135, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ===================================== ================== 263 37 100.0 37 ..................................... TTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 189 37 100.0 37 ..................................... CTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 115 37 97.3 35 ....................................T GCCCCGGCGTTTAGCGATCACAACACCAACTAATG 43 37 100.0 0 ..................................... | ========== ====== ====== ====== ===================================== ===================================== ================== 4 37 99.3 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACC # Left flank : GGCCACCTCCATGGTCCTCGACGCGATCGAGCAAGCCATCTGGACCCGCCAACAAGAAGGCGTACTCGACCTGAAAGACGTTATCCACCATACGGATAGGGGATCTCAGTACACATCGATCCGGTTCAGCGAGCGGCTCGCCGAGGCAGGCATCCAACCGTCGGTCGGAGCGGTCGGAAGCTCCTATGACAATGCACTAGCCGAGACGATCAACGGCCTATACAAGACCGAGCTGATCAAACCCGGCAAGCCCTGGCGGTCCATCGAGGATGTCGAGTTGGCCACCGCGCGCTGGGTCGACTGGTTCAACCATCGCCGCCTCTACCAGTACTGCGGCGACGTCCCGCCGGTCGAACTCGAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCACCCCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA # Right flank : CAGCGAA # 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 : GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACC # 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: F [-8.80,-7.70] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [5.0-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.37,1.05 Confidence: MEDIUM] # Array family : NA // Array 2 2933-1657 **** Predicted by CRISPRDetect 2.4 *** >NZ_JQGH01000135.1 Mycobacterium tuberculosis strain VRF CWCF XDRTB 1028 Contig_135, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 2932 36 100.0 37 .................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 2859 36 100.0 38 .................................... CTGAGGAGAGCGAGTACTCGGGGCTGCCGTCTGCGCTG 2785 36 100.0 37 .................................... GCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCCTAG 2712 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 2641 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 2568 36 100.0 41 .................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCG 2491 36 100.0 40 .................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGAG 2415 36 100.0 36 .................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACGT 2343 36 100.0 41 .................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGG 2266 36 100.0 24 .................................... CTTGAATAACGCGCAGTGAATTTC Deletion [2207] 2206 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [2202] 2133 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 2060 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 1988 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 1916 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 1843 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 1768 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 1692 35 75.0 0 ...................T..-.CC.CC...C.TG | C [1661] ========== ====== ====== ====== ==================================== ========================================= ================== 18 36 98.3 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAGCTGCGTGAGCGGGCGGTGCGGATGGTCGCAGAGATCCGCGGTCAGCACGATTCGGAGTGGGCAGCGATCAGTGAGGTCGCCCGTCTACTTGGTGTTGGCTGCGCGGAGACGGTGCGTAAGTGGGTGCGCCAGGCGCAGGTCGATGCCGGCGCACGGCCCGGGACCACGACCGAAGAATCCGCTGAGCTGAAGCGCTTGCGGCGGGACAACGCCGAATTGCGAAGGGCGAACGCGATTTTAAAGACCGCGTCGGCTTTCTTCGCGGCCGAGCTCGACCGGCCAGCACGCTAATTACCCGGTTCATCGCCGATCATCAGGGCCACCGCGAGGGCCCCGATGGTTTGCGGTGGGGTGTCGAGTCGATCTGCACACAGCTGACCGAGCTGGGTGTGCCGATCGCCCCATCGACCTACTACGACCACATCAACCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [46.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,1.15 Confidence: MEDIUM] # Array family : NA //