Array 1 3111987-3110616 **** Predicted by CRISPRDetect 2.4 *** >NZ_KK338951.1 Mycobacterium tuberculosis variant africanum MAL010129 adPfQ-supercont1.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================================= ================== 3111986 36 100.0 45 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATCCTCCCAGGAA 3111905 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 3111826 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 3111754 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 3111680 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCTCGC 3111606 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 3111533 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 3111462 36 100.0 41 .................................... CCGACGACGAGCAGCGGCATACAGAGCCACGGATACGCCAG 3111385 36 100.0 38 .................................... TTGCATCCACTCGTCGCCGACACGGCGGACTTCCGCGA 3111311 36 100.0 36 .................................... TGGTAATTGCGTCACGGCGCGCCTGGCGGGCCGATT 3111239 36 100.0 36 .................................... ACCATCCGACGCAGGCACCGAAGTCGATGACAAGCC 3111167 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 3111093 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 3111022 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 3110950 36 100.0 37 .................................... TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 3110877 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 3110801 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 3110725 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 3110651 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================================= ================== 19 36 99.7 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAGTCGAGGTCGTGATTTGTCAAGAGCCGCAACGCCTCCAGTTGGTCATAGCCGAGCAGGTGCGCTTCCTCGACGACCACGACGGGGGTGCGTCCGCGCTCGGCTTGTTCGGCGGCTAGCGCGTCGGCGGCCTGTGGGGCCAGGGTGGCGTGGTGGGTGAGGGGTTGTCCGCCGAGCGAGGCGACGATGCGGTGGTGGATGCCCTGGACGCCGACGGTGGGGTCGGGCAGGTAGATGACGGTGTGGCGGCTGCGATCCAGGCTCGCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCCCGAGAGGGGACGGAAACGCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [38.3-35.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.15 Confidence: HIGH] # Array family : NA // Array 2 3115069-3112910 **** Predicted by CRISPRDetect 2.4 *** >NZ_KK338951.1 Mycobacterium tuberculosis variant africanum MAL010129 adPfQ-supercont1.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =========================================== ================== 3115068 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 3114994 36 100.0 38 .................................... CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 3114920 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 3114848 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 3114776 36 100.0 37 .................................... TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCC 3114703 36 100.0 37 .................................... AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 3114630 36 100.0 35 .................................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA 3114559 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 3114485 36 100.0 37 .................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGCA 3114412 36 100.0 38 .................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCCT 3114338 36 100.0 38 .................................... GCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA 3114264 36 100.0 41 .................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGT 3114187 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 3114108 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 3114036 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 3113962 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 3113891 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 3113820 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 3113749 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 3113678 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 3113607 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCTCGC 3113533 36 100.0 36 .................................... ACCATCCGACGCAGGCACCGAAGTCGATGACAAGCC 3113461 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 3113387 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 3113316 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 3113244 36 100.0 37 .................................... TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 3113171 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 3113095 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 3113019 36 94.4 38 .................GA................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 3112945 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =========================================== ================== 30 36 99.7 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GGCCACCTCCATGGTCCTCGACGCGATCGAGCAAGCCATCTGGACCCGCCAACAAGAAGGCGTACTCGACCTGAAAGACGTTATCCACCATACGGATAGGGGATCTCAGTACACATCGATCCGGTTCAGCGAGCGGCTCGCCGAGGCAGGCATCCAACCGTCGGTCGGAGCGGTCGGAAGCTCCTATGACAATGCACTAGCCGAGACGATCAACGGCCTATACAAGACCGAGCTGATCAAACCCGGCAAGCCCTGGCGGTCCATCGAGGATGTCGAGTTGGCCACCGCGCGCTGGGTCGACTGGTTCAACCATCGCCGCCTCTACCAGTACTGCGGCGACGTCCCGCCGGTCGAACTCGAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCACCCCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # 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: 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 3 3118198-3116035 **** Predicted by CRISPRDetect 2.4 *** >NZ_KK338951.1 Mycobacterium tuberculosis variant africanum MAL010129 adPfQ-supercont1.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 3118197 36 100.0 38 .................................... TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC 3118123 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 3118046 36 100.0 36 .................................... TTTTTGCCTCATGCTTGGGCGACAGCTTTTGACCAA 3117974 36 100.0 34 .................................... TCGCAAGCGCCGTGCTTCCAGTGATCACCTTCTA 3117904 36 100.0 37 .................................... TCGCGGCGCGGCATGGCACGGCAGGCGTGGCTAGGGG 3117831 36 100.0 35 .................................... ATGTGCGCCGTCGCCGTAAGTGCCCCACGGCCCGT 3117760 36 100.0 36 .................................... ATTTCGACGACAATTCGTTGACCACGAATTTTCAGA 3117688 36 100.0 39 .................................... ACATCCCACGCGTTACCGCTGGCGCGCATCATTCATCGA 3117613 36 100.0 39 .................................... CCATATCGGGGACGGCGACGCTGCGAGAGGACACGCCGA 3117538 36 100.0 37 .................................... TACACCACGCGTCGTGCCATCAGTCAGCGTCCTCCTC 3117465 36 100.0 38 .................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 3117391 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 3117316 36 100.0 35 .................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG 3117245 36 100.0 37 .................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 3117172 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 3117099 36 100.0 41 .................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCG 3117022 36 100.0 40 .................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGAG 3116946 36 100.0 36 .................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACGT 3116874 36 100.0 41 .................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGG 3116797 36 100.0 24 .................................... CTTGAATAACGCGCAGTGAATTTC Deletion [3116738] 3116737 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [3116733] 3116664 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 3116591 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 3116519 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 3116447 36 100.0 41 .................................... TCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 3116370 36 97.2 40 .........................A.......... TCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCGA 3116294 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 3116221 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 3116146 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 3116070 35 75.0 0 ...................T..-.CC.CC...C.TG | C [3116039] ========== ====== ====== ====== ==================================== ========================================= ================== 30 36 98.9 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : TTCAGTACGCCCTCGACTTGCAACTGCAAAGCCTCGTGCGTGTTATCGAAGCCGGGCACCCGTCGCGGCTCGTCGATATCGATATCACCTCCGAGCCATCCGGAGCCTAAATGCCCACTCGCAGCCGTGAGGAGTACTTCAATCTCCCGCTCAAAGTGGACGAGTCCAGCGGCACTATAGGCAAGATGTTCGTCCTCGTAATATACGACATCAGCGACAACCGGCGGCGGGCTTCACTTGCGAAGATCCTGGCCGGGTTTGGCTATCGCGTCCAAGAGTCCGCATTCGAAGCGATGCTGACGAAGGGCCAGCTCGCGAAACTAGTTGCACGTATCGACCGCTTCGCCATCGACTGCGACAACATCCGGATCTATAAGATAAGAGGTGTTGCGGCAGTTACGTTCTACGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGA # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTCAGGTGGTTCATCGAGGAGGTACCCGCCGGAGCTGCGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCTGAACCGTGAGGGCATCGAGGTGGCCAGATGCACCGTCGAACGGCTGATGACCAAACTCGGCCTGTCCGGGACCACCCGCGGCAAAGCCCGCAGGACCACGATCGCTGATCCGGCCACAGCCCGTCCCGCCGATCTCGTCCAGCGCCGCTTCGGACCACCAGCACCTAACCGGCTGTGGGTAGCAGACCTCACCTATGTGTCGACCTGGGCAGGGTTCGCCTACGTGGCCTTTGTCACCGACGCCTACGCTCGCAGGATCCTGGGCTGGCGGGTCGCTTCCACGATGGCCACCTCCATGGTCCTCGACGCGATCGAGCAA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.00, 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 [15-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [46.7-55.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.15 Confidence: HIGH] # Array family : NA //