Array 1 1-400 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000149.1 Mycobacterium tuberculosis strain T73-R_S39 186, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ===================================== ======================================== ================== 1 37 100.0 40 ..................................... CAGGTGAGCAACGGCGGCGGCAACCTGGCGGCCACGGGTC 78 37 100.0 39 ..................................... ATGGGATATCTGCTGCCCGCCCGGGGAGATGCTGTCCGA 154 37 100.0 35 ..................................... TTCGTCGACCATCATTGCCATTCCCTCTCCCCACG 226 37 97.3 40 T.................................... TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCG 303 37 100.0 24 ..................................... CTTGAATAACGCGCAGTGAATTTC Deletion [364] 364 37 89.2 0 .CGGA................................ | ========== ====== ====== ====== ===================================== ======================================== ================== 6 37 97.8 36 GGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : ATTCGCACGAGTTCCCGTCAG # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.09, 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 : 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-15.0]%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 40-268 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000261.1 Mycobacterium tuberculosis strain T73-R_S39 324, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================== ======================================= ================== 40 34 94.1 15 GA................................ ATTCGCACGAGTTCC Deletion [89] 89 34 100.0 39 .................................. TCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCCGT 162 34 100.0 39 .................................. AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCGGT 235 34 100.0 0 .................................. | ========== ====== ====== ====== ================================== ======================================= ================== 4 34 98.5 31 CGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GGGGACGGAAACCTTGAATAACGCGCAGTGAATTTCGCGG # Right flank : TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAAGTCGTCAGACCCAAAACCCCGAGAGG # Questionable array : NO Score: 5.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.64, 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 : CGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # 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 [12,1] 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [30.0-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.74,0.68 Confidence: LOW] # Array family : NA // Array 1 91-258 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000439.1 Mycobacterium tuberculosis strain T73-R_S39 546, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ======================= =================================================== ================== 91 23 91.3 48 TC..................... TCGGGGAGCCGATCAGCGACCACCGCACCCTGTCAGTCGTCAGACCCA 162 23 100.0 51 ....................... CTTCAGCACCACCATCATCCGGCGCCTCAGCTCAGCATGTCGTCAGACCCA 236 23 100.0 0 ....................... | ========== ====== ====== ====== ======================= =================================================== ================== 3 23 97.1 50 AAACCCCGAGAGGGGACGGAAAC # Left flank : GAACTCGAGGCTGCCTACTACGCTCAACGCCAGAGACCAGCCGCCGGCTGAGGTCTCAGATCAGAGAGTCTCCGGACTCACCGGGGCGGTT # Right flank : CCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATAGGTCGTCA # Questionable array : NO Score: 4.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.29, 8:0.4, 9:0.69, # 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 : AAACCCCGAGAGGGGACGGAAAC # 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 [7,0] Score: 0.37/0.37 # Reference repeat match prediction: F [matched AATCCCCGAAAGGGGACGGAAAC with 95% identity] Score: 4.5/4.5 # 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 [33.3-30.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : I-C [Matched known repeat from this family], // Array 1 1300-822 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000513.1 Mycobacterium tuberculosis strain T73-R_S39 628, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ======================================== ================== 1299 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 1228 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 1156 36 97.2 37 ......G............................. TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA 1083 36 100.0 40 .................................... GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT 1007 36 97.2 40 ...C................................ ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA 931 36 97.2 38 ..................A................. TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA 857 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ======================================== ================== 7 36 98.8 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CCCCGAGAGGGGACGGAAACCCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCG # Right flank : TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [38.3-35.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.74 Confidence: HIGH] # Array family : NA // Array 1 95-498 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000617.1 Mycobacterium tuberculosis strain T73-R_S39 757, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 95 36 100.0 38 .................................... TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC 169 36 100.0 41 .................................... CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT 246 36 100.0 36 .................................... TTTTTGCCTCATGCTTGGGCGACAGCTTTTGACCAA 318 36 100.0 34 .................................... TCGCAAGCGCCGTGCTTCCAGTGATCGCCTTCTA 388 36 100.0 39 .................................... AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG 463 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ========================================= ================== 6 36 100.0 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGAG # Right flank : TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAGGTCGTC # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [55.0-31.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.01,0 Confidence: HIGH] # Array family : NA // Array 1 449-46 **** Predicted by CRISPRDetect 2.4 *** >NZ_QTJG01000653.1 Mycobacterium tuberculosis strain T73-R_S39 797, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ========================================= ================== 448 36 94.4 36 .CG................................. ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCA A [444] 375 36 100.0 37 .................................... CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCG 302 36 100.0 36 .................................... CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAG 230 36 100.0 36 .................................... TGGATTGCGCTAACTGGCTTGGCGCTGATCCTGGTG 158 36 100.0 41 .................................... TCCACATCGATTTCCTTGACCTCGCCAGGAGAGAAGATCAC 81 36 97.2 0 .........................A.......... | ========== ====== ====== ====== ==================================== ========================================= ================== 6 36 98.6 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GGGGACGGAAACCTTGAATAACGCGCAGTGAATTT # Right flank : CTCGTCGACGATCGCGTCGATGTCGATGAACCGCCCCGGCATGTCC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: F [1-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [26.7-30.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,0.74 Confidence: LOW] # Array family : NA //