Array 1 241949-241309 **** Predicted by CRISPRDetect 2.4 *** >NZ_CGDA01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH24 isolate CH24, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 241948 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 241887 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 241826 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 241765 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 241704 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 241643 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 241582 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 241521 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 241460 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 241399 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 241338 29 96.6 0 A............................ | A [241311] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAGTCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 259695-258081 **** Predicted by CRISPRDetect 2.4 *** >NZ_CGDA01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH24 isolate CH24, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 259694 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 259633 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 259572 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 259511 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 259450 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 259389 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 259328 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 259267 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 259206 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 259145 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 259084 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 259023 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 258962 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 258901 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 258840 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 258779 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 258718 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 258657 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258596 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258535 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 258474 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 258413 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 258352 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 258291 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 258230 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 258169 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 258108 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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], //