Array 1 3088538-3086367 **** Predicted by CRISPRDetect 2.4 *** >NZ_LR993210.1 Mycobacterium tuberculosis variant africanum isolate Various chromosome MAF01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =========================================== ================== 3088537 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 3088463 36 100.0 38 .................................... CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 3088389 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 3088317 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 3088245 36 100.0 37 .................................... TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCC 3088172 36 100.0 37 .................................... AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 3088099 36 100.0 35 .................................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA 3088028 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 3087954 36 100.0 37 .................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGCA 3087881 36 100.0 38 .................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCCT 3087807 36 100.0 38 .................................... GCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA 3087733 36 100.0 41 .................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGT 3087656 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 3087577 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 3087505 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 3087431 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCACGC 3087357 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 3087284 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 3087213 36 100.0 41 .................................... CCGACGACGAGCAGCGGCATACAGAGCCACGGATACGCCAG 3087136 36 100.0 38 .................................... TTGCATCCACTCGTCGCCGACACGGCGGACTTCCGCGA 3087062 36 100.0 36 .................................... TGGTAATTGCGTCACGGCGCGCCTGGCGGGCCGATT 3086990 36 100.0 36 .................................... ACCATCCGACGCAGGCACCGAAGTCGATGACAAGCC 3086918 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 3086844 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 3086773 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 3086701 36 100.0 37 .................................... TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 3086628 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 3086552 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 3086476 36 94.4 38 .................GA................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 3086402 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =========================================== ================== 30 36 99.7 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCCGAGAGGGGACGGAAACCCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGAGTCGTCAGACCCAAAACCCTGAACCGCCCCGGCATGTCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTTAGGCGGGTAGCTGGAGCGCAGGCGAATCAGCCAGCGCTGCGGACAGCTGGCCGCCGTAGGCGGGTAGCTGGAGCGCAGGCGAATCAGCCAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGGCCCTGATGGTGGCGACCCGCGGCGCCCGGTCCCCGCGCTTGCGATCGCCACTGGCCCTGATGAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCACCCCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA # 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 2 3091106-3088943 **** Predicted by CRISPRDetect 2.4 *** >NZ_LR993210.1 Mycobacterium tuberculosis variant africanum isolate Various chromosome MAF01, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 3091105 36 100.0 38 .................................... TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC 3091031 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 3090954 36 100.0 36 .................................... TTTTTGCCTCATGCTTGGGCGACAGCTTTTGACCAA 3090882 36 100.0 34 .................................... TCGCAAGCGCCGTGCTTCCAGTGATCACCTTCTA 3090812 36 100.0 37 .................................... TCGCGGCGCGGCATGGCACGGCAGGCGTGGCTAGGGG 3090739 36 100.0 35 .................................... ATGTGCGCCGTCGCCGTAAGTGCCCCACGGCCCGT 3090668 36 100.0 36 .................................... ATTTCGACGACAATTCGTTGACCACGAATTTTCAGA 3090596 36 100.0 39 .................................... ACATCCCACGCGTTACCGCTGGCGCGCATCATTCATCGA 3090521 36 100.0 39 .................................... CCATATCGGGGACGGCGACGCTGCGAGAGGACACGCCGA 3090446 36 100.0 37 .................................... TACACCACGCGTCGTGCCATCAGTCAGCGTCCTCCTC 3090373 36 100.0 38 .................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 3090299 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 3090224 36 100.0 35 .................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG 3090153 36 100.0 37 .................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 3090080 36 100.0 37 .................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCGG 3090007 36 100.0 41 .................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTCG 3089930 36 100.0 40 .................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGAG 3089854 36 100.0 36 .................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACGT 3089782 36 100.0 41 .................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGG 3089705 36 100.0 24 .................................... CTTGAATAACGCGCAGTGAATTTC Deletion [3089646] 3089645 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [3089641] 3089572 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 3089499 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 3089427 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 3089355 36 100.0 41 .................................... TCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 3089278 36 94.4 40 ........................AA.......... TCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCGA 3089202 36 100.0 37 .................................... TTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAA 3089129 36 100.0 39 .................................... CCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGT 3089054 36 100.0 40 .................................... CCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGA 3088978 35 75.0 0 ...................T..-.CC.CC...C.TG | C [3088947] ========== ====== ====== ====== ==================================== ========================================= ================== 30 36 98.8 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : TTCAGTACGCCCTCGACTTGCAACTGCAAAGCCTCGTGCGTGTTATCGAAGCCGGGCACCCGTCGCGGCTCGTCGATATCGATATCACCTCCGAGCCATCCGGAGCCTAAATGCCCACTCGCAGCCGTGAGGAGTACTTCAATCTCCCGCTCAAAGTGGACGAGTCCAGCGGCACTATAGGCAAGATGTTCGTCCTCGTAATATACGACATCAGCGACAACCGGCGGCGGGCTTCACTTGCGAAGATCCTGGCCGGGTTTGGCTATCGCGTCCAAGAGTCCGCATTCGAAGCGATGCTGACGAAGGGCCAGCTCGCGAAACTAGTTGCACGTATCGACCGCTTCGCCATCGACTGCGACAACATCCGGATCTATAAGATAAGAGGTGTTGCGGCAGTTACGTTCTACGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGA # Right flank : TCCGGAGACTCCAGTTCTTGGAAAGGATGGGGTCATGTTAGGCGGGTAGCTGGAGCGCAGGCGAATCAGCCAGCGCTGCGGACAGCTGGCCGCCGTAGGCGGGTAGCTGGAGCGCAGGCGAATCAGCCAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGGCCCTGATGGTGGCGACCCGCGGCGCCCGGTCCCCGCGCTTGCGATCGCCACTGGCCCTGATGAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTTCACCCCGAGAGGGGACGGAAACTCGGGGAGCCGATCAGCGACCACCGCACCCTGTCAGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACCTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCATGTCGTCAGACCCAAAACCCCG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [16-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [41.7-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.42 Confidence: HIGH] # Array family : NA //