Array 1 218677-216779 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKQ01000012.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48695 N48695_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218676 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218615 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218554 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218493 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218431 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218370 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218309 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218248 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 218187 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 218126 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 218065 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 218004 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217943 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217882 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217821 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217760 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217699 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217638 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217577 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217516 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217458 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217397 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217336 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217275 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 217214 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 217153 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 217092 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 217031 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216992] 216991 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216930 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216869 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216808 29 93.1 0 A...........T................ | A [216781] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 236575-234959 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKQ01000012.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48695 N48695_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236574 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236512 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236451 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236390 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236329 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236268 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 236207 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 236146 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 236085 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 236024 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235963 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235902 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235841 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235780 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235719 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235658 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235597 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235536 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235474 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235413 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235352 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 235291 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 235230 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 235169 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 235108 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 235047 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234986 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 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], //