Array 1 162748-162108 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHB01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH9 isolate CH9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 162747 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTACTG 162686 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162625 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162564 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162503 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 162442 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 162381 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 162320 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162259 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162198 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162137 29 96.6 0 A............................ | A [162110] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 180494-178880 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHB01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH9 isolate CH9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 180493 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 180432 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 180371 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 180310 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 180249 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 180188 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 180127 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 180066 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 180005 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 179944 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 179883 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 179822 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 179761 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 179700 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179639 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179578 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 179517 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179456 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179395 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179334 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 179273 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 179212 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 179151 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 179090 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 179029 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178968 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178907 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //