Array 1 218447-216549 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABO01000034.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM 23729 23729_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218446 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218385 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218324 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218263 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218201 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218140 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218079 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218018 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 217957 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217896 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217835 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217774 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217713 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217652 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217591 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217530 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217469 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217408 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217347 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217286 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217228 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217167 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217106 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217045 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 216984 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 216923 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216862 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216801 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216762] 216761 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216700 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216639 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216578 29 93.1 0 A...........T................ | A [216551] ========== ====== ====== ====== ============================= ================================= ================== 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 236345-234729 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABO01000034.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM 23729 23729_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236344 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236282 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236221 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236160 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236099 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236038 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 235977 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 235916 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235855 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235794 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235733 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235672 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235611 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235550 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235489 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235428 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235367 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235306 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235244 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235183 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235122 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 235061 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 235000 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 234939 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234878 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234817 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234756 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], //