Array 1 1037616-1038802 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP024165.1 Salmonella enterica subsp. enterica serovar Gaminara strain CFSAN070644 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1037616 29 96.6 32 ..A.......................... CCCGGTTTTACCGCCAACACTCACTATATTGT 1037677 29 96.6 32 ..A.......................... CGGCTCGACCGGGAGCTTGCCGGCATCGTGGA 1037738 29 96.6 32 ..A.......................... CAATCATCTGATTTTTTATCATTGAGAGATAT 1037799 29 96.6 32 ..A.......................... TCCGGGGAAAGAACTCGCCTCGTCCAGCGTCA 1037860 29 96.6 32 ..A.......................... GAGCACTTTTACTGTAGGACTTGTATGAATCT 1037921 29 96.6 32 ..A.......................... CGGCCGTAGCGCCGCTCAGTCCGGGGGATGGT 1037982 29 93.1 32 ..A........A................. CAATTGCGTTCTTGCTTATGCCCAGCGACTTA 1038043 29 96.6 32 ............T................ ATTTCAAACACTCCGGGTCTGCCAGCGCCTCA 1038104 29 100.0 32 ............................. CGGCGGCGGACGCCGCTCAGATAGCCAAAACC 1038165 29 100.0 32 ............................. TATACAGGATTCTCACACTTTGGTTTGGTCGA 1038226 29 100.0 32 ............................. CGTTTTTTTTATTTGTACTATTGTCAGTACCC 1038287 29 100.0 32 ............................. CGGAAACAAACAAAGTTTTGCGCGATTCCACC 1038348 29 100.0 32 ............................. CACCAGGTAACAATATCGTCCCCGACCTTTAT 1038409 29 100.0 32 ............................. GCGAAATTCCCCAGATACCGCGCATCGGCACT 1038470 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 1038531 29 96.6 32 ............T................ CTCGGGGATTTTGTGCCACCCAAAACGCTCGC 1038592 29 96.6 32 ............T................ TTGCCACAACCACAATGGATCAGGAGCAATTA 1038653 29 96.6 32 ............T................ GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1038714 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 1038775 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATTATAGTCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.54 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.43, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # 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 [2-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%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 1055563-1056873 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP024165.1 Salmonella enterica subsp. enterica serovar Gaminara strain CFSAN070644 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1055563 29 100.0 32 ............................. CCCGTCCACTGCTGGATGAAATGATGGAATGT 1055624 29 100.0 32 ............................. GGCACGACGCACCTGCTAAAAAATACTACCGC 1055685 29 100.0 32 ............................. CGCCAGCGCTGAGGTGAATTTTAACGGTGTCA 1055746 29 100.0 32 ............................. AAACAACTCTGTCTATTTTATGAATAGTTAAA 1055807 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 1055868 29 100.0 32 ............................. GTACGTTGCCAGATTGCTTTCAATGATGGCGT 1055929 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 1055990 29 100.0 32 ............................. AAAACCCAGGAACGGCACCAAAATTTACACAT 1056051 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 1056112 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 1056173 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 1056234 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 1056295 29 100.0 32 ............................. GAGCATACGGAAATTAAAGGGGTTAACGATCA 1056356 29 100.0 32 ............................. CGCGCAACATTCATTACTGCCCACTATTCAGA 1056417 29 100.0 32 ............................. AACGCGCCGCCTTAGAAAAACAGCGAGGGGAT 1056478 29 100.0 32 ............................. CGTCCTGTACGTGGTAGCGATAATCGTAATAA 1056539 29 100.0 32 ............................. ACGCTGAAAAACGATATTTCGCTGACCTATGC 1056600 29 100.0 32 ............................. GCTGATACGCAGACGATCACAAACTATATGGG 1056661 29 93.1 32 ...........................TT TAATCATTTTGTTTAAATCCCGGATCACCTCC 1056722 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 1056783 29 96.6 32 ......T...................... CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 1056844 29 96.6 0 ............T................ | A [1056871] ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTATTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATTAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-5] 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], //