Array 1 5-2048 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWXF01000024.1 Mycobacterium tuberculosis variant africanum strain ATCC 25420 M_tuberculosis_africanum_ATCC25240_Contig37, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================================== ================== 5 36 100.0 38 .................................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCAT 79 36 100.0 38 .................................... CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAG 153 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 225 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 297 36 100.0 37 .................................... TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCC 370 36 100.0 37 .................................... AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 443 36 100.0 35 .................................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCA 514 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 588 36 100.0 37 .................................... TCGACACCGACATGACGGCGGTGCCGCACTTGACGCA 661 36 100.0 38 .................................... CTTTGCGAAGTCACCTCGCCCACACCGTCGAAGCGCCT 735 36 100.0 38 .................................... GCGGATGGTGGGCAAGTTGGCGCTGGGGTCTGAGTCAA 809 36 100.0 41 .................................... CTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGT 886 36 100.0 43 .................................... TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAA 965 36 100.0 36 .................................... GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGG 1037 36 100.0 38 .................................... TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGT 1111 36 100.0 38 .................................... ACGGAAACGCAGCACCAGCCTGACAATCTTATTCACGC 1185 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 1258 36 100.0 35 .................................... GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT 1329 36 100.0 41 .................................... CCGACGACGAGCAGCGGCATACAGAGCCACGGATACGCCAG 1406 36 100.0 46 .................................... TNNNNNNNNNNGGTAATTGCGTCACGGCGCGCCTGGCGGGCCGATT 1488 36 100.0 36 .................................... ACCATCCGACGCAGGCACCGAAGTCGATGACAAGCC 1560 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 1634 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 1705 36 100.0 46 .................................... CCTNNNNNNNNNNCGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 1787 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 1863 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 1939 36 94.4 38 .................GA................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 2013 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ============================================== ================== 28 36 99.7 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GTCAG # Right flank : CTACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGA # 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: F [12,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.70,-6.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [3.3-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.15,0.27 Confidence: MEDIUM] # Array family : NA // Array 1 920-3 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWXF01000033.1 Mycobacterium tuberculosis variant africanum strain ATCC 25420 M_tuberculosis_africanum_ATCC25240_Contig51, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 919 36 100.0 38 .................................... TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC 845 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 768 36 100.0 36 .................................... TTTTTGCCTCATGCTTGGGCGACAGCTTTTGACCAA 696 36 100.0 34 .................................... TCGCAAGCGCCGTGCTTCCAGTGATCACCTTCTA 626 36 100.0 37 .................................... TCGCGGCGCGGCATGGCACGGCAGGCGTGGCTAGGGG 553 36 100.0 35 .................................... ATGTGCGCCGTCGCCGTAAGTGCCCCACGGCCCGT 482 36 100.0 36 .................................... ATTTCGACGACAATTCGTTGACCACGAATTTTCAGA 410 36 100.0 39 .................................... ACATCCCACGCGTTACCGCTGGCGCGCATCATTCATCGA 335 36 100.0 39 .................................... CCATATCGGGGACGGCGACGCTGCGAGAGGACACGCCGA 260 36 100.0 37 .................................... TACACCACGCGTCGTGCCATCAGTCAGCGTCCTCCTC 187 36 100.0 38 .................................... TTGAACACGGAGCCGTGCACATGCCGTGGCTCAGGGGT 113 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 38 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ========================================= ================== 13 36 100.0 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : TTCAGTACGCCCTCGACTTGCAACTGCAAAGCCTCGTGCGTGTTATCGAAGCCGGGCACCCGTCGCGGCTCGTCGATATCGATATCACCTCCGAGCCATCCGGAGCCTAAATGCCCACTCGCAGCCGTGAGGAGTACTTCAATCTCCCGCTCAAAGTGGACGAGTCCAGCGGCACTATAGGCAAGATGTTCGTCCTCGTAATATACGACATCAGCGACAACCGGCGGCGGGCTTCACTTGCGAAGATCCTGGCCGGGTTTGGCTATCGCGTCCAAGAGTCCGCATTCGAAGCGATGCTGACGAAGGGCCAGCTCGCGAAACTAGTTGCACGTATCGACCGCTTCGCCATCGACTGCGACAACATCCGGATCTATAAGATAAGAGGTGTTGCGGCAGTTACGTTCTACGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGA # Right flank : CTT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [3.3-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.01 Confidence: HIGH] # Array family : NA // Array 1 2-480 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWXF01000084.1 Mycobacterium tuberculosis variant africanum strain ATCC 25420 M_tuberculosis_africanum_ATCC25240_Contig176, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================== ================== 2 37 100.0 34 ..................................... TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTA 73 37 100.0 36 ..................................... ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCC 146 37 97.3 36 T.................................... CGGGCAGCGTTCGACACCCGCTCTAGTTGACTTCCG 219 37 100.0 40 ..................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTC 296 37 100.0 39 ..................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGA 372 37 100.0 35 ..................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACG 444 37 97.3 0 T.................................... | ========== ====== ====== ====== ===================================== ======================================== ================== 7 37 99.2 37 GGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : AG # Right flank : TT # 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 : GGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Alternate repeat : TGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [12,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: F [-7.70,-6.40] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [1.7-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.15,0 Confidence: HIGH] # Array family : NA // Array 1 2-322 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWXF01000098.1 Mycobacterium tuberculosis variant africanum strain ATCC 25420 M_tuberculosis_africanum_ATCC25240_Contig205, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================== ===================================================== ================== 2 24 100.0 48 ........................ GGGGACGGAAACCCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 74 24 100.0 48 ........................ GGGGACGGAAACTGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 146 24 100.0 53 ........................ GGGGACGGAAACTCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 223 24 100.0 52 ........................ AAGGACGGAAACTCGTCGACGATCGCGTCGATGTCGATGTCCCAATCGTCGA 299 24 100.0 0 ........................ | ========== ====== ====== ====== ======================== ===================================================== ================== 5 24 100.0 50 GTCGTCAGACCCAAAACCCCGAGA # Left flank : AG # Right flank : GGGGACGGAAACT # Questionable array : NO Score: 5.76 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.29, 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 : GTCGTCAGACCCAAAACCCCGAGA # 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: F [8,2] Score: 0.37/0.37 # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [1.7-8.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.37,0 Confidence: MEDIUM] # Array family : NA // Array 1 646-331 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWXF01000122.1 Mycobacterium tuberculosis variant africanum strain ATCC 25420 M_tuberculosis_africanum_ATCC25240_Contig286, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ============================================= ================== 645 32 100.0 45 ................................ TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGGGTCG 568 32 100.0 29 ................................ CTTGAATAACGCGCAGTGAATTTCGCGGA 507 32 100.0 40 ................................ ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCAGTCG 435 32 100.0 41 ................................ CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCGGTCG 362 32 100.0 0 ................................ | ========== ====== ====== ====== ================================ ============================================= ================== 5 32 100.0 39 TCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GTGTC # Right flank : CCGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGANNNNNNNNNNCGAGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACTTGGAGCGTGTCACCGCAGACGGCACGATTGAGACAAGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACCCTCAGCTCAGCATCGCTGATGCGGTCCAGCTCGTCCGTGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACCCAACCTCACCGCCTGCTGGGTGAGACGTGCTCGCCGCGAGTCGTCAGACCCAAAACCCTGAACCGCCCCGGCATGTCCGGAGACTCCAGTTCTTGGA # 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 : TCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [1,12] 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 [25.0-3.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.74 Confidence: MEDIUM] # Array family : NA //