Array 1 162521-160806 **** Predicted by CRISPRDetect 2.4 *** >NZ_NKQM01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-70-15 70_15_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162520 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 162459 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162398 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162337 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162275 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 162214 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162153 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162092 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162031 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 161970 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 161909 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161848 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161787 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161726 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161665 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161604 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161543 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161485 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161424 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161363 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161302 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161241 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161180 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161119 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161058 29 100.0 11 ............................. CGGCCAGCCAT Deletion [161019] 161018 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 160957 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 160896 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160835 29 93.1 0 A...........T................ | A [160808] ========== ====== ====== ====== ============================= ================================= ================== 29 29 97.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.05, 8:1, 9:0.97, # 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 180419-178803 **** Predicted by CRISPRDetect 2.4 *** >NZ_NKQM01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-70-15 70_15_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180418 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180356 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 180295 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 180234 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 180173 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180112 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180051 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 179990 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 179929 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 179868 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 179807 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 179746 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179685 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 179624 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 179563 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 179502 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179441 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179380 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179318 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179257 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 179196 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179135 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179074 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179013 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 178952 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 178891 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 178830 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], //