Array 1 2951635-2949981 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP026660.1 Salmonella enterica subsp. enterica strain 15-SA01028 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2951634 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 2951573 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 2951512 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 2951451 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 2951389 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 2951328 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 2951267 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 2951206 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 2951145 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 2951084 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 2951023 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 2950962 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 2950901 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 2950840 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 2950779 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2950718 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 2950660 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 2950599 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 2950538 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 2950477 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 2950416 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 2950355 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 2950294 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 2950233 29 100.0 11 ............................. CGGCCAGCCAT Deletion [2950194] 2950193 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 2950132 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 2950071 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2950010 29 93.1 0 A...........T................ | A [2949983] ========== ====== ====== ====== ============================= ================================= ================== 28 29 97.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.06, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [11-0] 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 2969411-2967917 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP026660.1 Salmonella enterica subsp. enterica strain 15-SA01028 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2969410 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 2969348 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 2969287 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 2969226 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 2969165 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 2969104 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 2969043 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 2968982 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 2968921 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 2968860 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 2968799 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 2968738 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 2968677 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 2968616 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 2968555 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 2968494 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 2968433 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 2968372 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 2968310 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 2968249 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 2968188 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 2968127 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 2968066 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 2968005 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 2967944 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [6-0] 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], //