Array 1 4231616-4233108 **** Predicted by CRISPRDetect 2.4 *** >NZ_OU015340.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00027944 isolate AUSMDU00027944 chromosome C1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4231616 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 4231677 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 4231738 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 4231799 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 4231860 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 4231921 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 4231982 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 4232043 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 4232104 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 4232165 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4232226 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 4232287 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 4232348 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 4232409 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 4232470 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 4232531 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 4232593 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 4232654 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 4232715 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 4232776 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 4232837 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 4232898 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 4232959 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 4233020 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 4233081 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 4250457-4252421 **** Predicted by CRISPRDetect 2.4 *** >NZ_OU015340.1 Salmonella enterica subsp. enterica serovar Typhimurium strain AUSMDU00027944 isolate AUSMDU00027944 chromosome C1, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 4250457 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 4250518 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 4250579 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 4250640 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 4250701 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 4250762 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 4250823 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 4250885 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 4250946 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 4251007 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 4251068 29 96.6 32 ..........................A.. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 4251129 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 4251190 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 4251251 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 4251312 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4251373 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4251434 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 4251495 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 4251556 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 4251617 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 4251678 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 4251740 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 4251843 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 4251904 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 4251965 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 4252026 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 4252087 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 4252148 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 4252209 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 4252270 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 4252331 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 4252392 29 96.6 0 A............................ | A [4252418] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.5 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //