Array 1 1-180 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGV01000196.1 Mycobacterium tuberculosis strain CDPH_C61 contig196, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ===================================== ================== 1 36 100.0 37 .................................... GCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCCTAG 74 36 100.0 35 .................................... ACTCGGAATCCCATGTGCTGACAGCGGATTCGCAT 145 36 41.7 0 ...............NNNNNNNNNNNNNNNNNNNNN | ========== ====== ====== ====== ==================================== ===================================== ================== 3 36 80.6 36 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACACGGGATATCTCCTGCCCGCCCGGGGAGATGCTGTCCGAGGTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAACTTCGTCGACCATCATTGCCATTCCCTCTCCCCACGTGTCGTCAGACCCAAAA # Questionable array : NO Score: 4.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.03, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [0-21] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [1.15,0 Confidence: HIGH] # Array family : NA // Array 1 1-249 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGV01000177.1 Mycobacterium tuberculosis strain CDPH_C61 contig177, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ================================ ========================================= ================== 1 32 100.0 40 ................................ ATTCGCACGAGTTCCCGTCAGCGTCGTAAATCGCCAGTCG 73 32 100.0 41 ................................ CCGGCAACAATCGCGCCGGCCCGCGCGGATGACTCCGGTCG 146 32 100.0 40 ................................ CGCATGGACCCGGGCGAGCTGCAGATGGTCCGGGAGGTCG 218 32 100.0 0 ................................ | ========== ====== ====== ====== ================================ ========================================= ================== 4 32 100.0 41 TCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : | # Right flank : TGGA # 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 : 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.74,0 Confidence: HIGH] # Array family : NA // Array 1 55-310 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGV01000178.1 Mycobacterium tuberculosis strain CDPH_C61 contig178, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ====================================== ================== 55 36 100.0 37 .................................... AGGATCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG 128 36 100.0 38 .................................... TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA 202 36 100.0 37 .................................... ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG 275 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== ====================================== ================== 4 36 100.0 38 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : CGAGAGGGGACGGAAACTCTTGACGATGCGGTTGCCCCGCGCCCTTTTCCAGCCG # Right flank : GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGTGTCGTCAGACCCAAAAC # 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: 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: NA [31.7-31.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.74,0 Confidence: HIGH] # Array family : NA // Array 1 252-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGV01000180.1 Mycobacterium tuberculosis strain CDPH_C61 contig180, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ====================================== ================== 251 36 100.0 38 .................................... TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT 177 36 100.0 35 .................................... CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA 106 36 100.0 36 .................................... CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG 34 34 91.7 0 ......G...........................-- | ========== ====== ====== ====== ==================================== ====================================== ================== 4 36 97.9 37 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GAGAGGGGACGGAAACCCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCG # Right flank : A # Questionable array : NO Score: 5.76 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.42 Confidence: HIGH] # Array family : NA // Array 1 163-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGV01000186.1 Mycobacterium tuberculosis strain CDPH_C61 contig186, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ==================================== ================== 162 36 100.0 36 .................................... TGCCCCGGCGTTTAGCGATCACAACACCAACTAATG 90 36 100.0 36 .................................... CAGCGAAATACAGGCTCCACGACACGACCACAACGC 18 18 50.0 0 ..................------------------ | ========== ====== ====== ====== ==================================== ==================================== ================== 3 36 83.3 36 GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC # Left flank : GAGAGGGGACGGAAACCCTTCGACGCCGGATTCGTGATCTCTTCCCGCGGATA # Right flank : C # Questionable array : NO Score: 4.52 # Score Detail : 1:0, 2:3, 3:0, 4:0.16, 5:0, 6:0.25, 7:0.02, 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 : 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: R [0.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,1.42 Confidence: HIGH] # Array family : NA //