Array 1 241942-241302 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH48 isolate CH48, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 241941 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 241880 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 241819 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 241758 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 241697 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 241636 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 241575 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 241514 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 241453 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 241392 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 241331 29 96.6 0 A............................ | A [241304] ========== ====== ====== ====== ============================= ================================ ================== 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 259627-258074 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH48 isolate CH48, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 259626 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 259565 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 259504 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 259443 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 259382 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 259321 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 259260 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 259199 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 259138 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 259077 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 259016 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 258955 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 258894 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 258833 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 258772 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 258711 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 258650 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 258589 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258528 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 258467 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 258406 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 258345 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 258284 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 258223 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 258162 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 258101 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 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 [8-0] 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], //