Array 1 241930-241290 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGL01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH28 isolate CH28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 241929 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 241868 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 241807 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 241746 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 241685 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 241624 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 241563 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 241502 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 241441 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 241380 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 241319 29 96.6 0 A............................ | A [241292] ========== ====== ====== ====== ============================= ================================ ================== 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 259615-258062 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGL01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH28 isolate CH28, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 259614 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 259553 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 259492 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 259431 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 259370 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 259309 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 259248 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 259187 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 259126 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 259065 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 259004 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 258943 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 258882 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 258821 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 258760 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 258699 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 258638 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 258577 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258516 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 258455 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 258394 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 258333 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 258272 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 258211 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 258150 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 258089 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], //