Array 1 161890-160175 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPH01000006.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-69-15 69_15_contig_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 161889 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 161828 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 161767 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 161706 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 161644 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 161583 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 161522 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 161461 29 100.0 32 ............................. CTACAGTAGCAAAATAAAAAGGCCGCGTGAGC 161400 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 161339 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 161278 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161217 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161156 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161095 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161034 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 160973 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 160912 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 160854 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 160793 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 160732 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 160671 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 160610 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 160549 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 160488 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 160427 29 100.0 11 ............................. CGGCCAGCCAT Deletion [160388] 160387 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 160326 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 160265 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160204 29 93.1 0 A...........T................ | A [160177] ========== ====== ====== ====== ============================= ================================= ================== 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 179788-178172 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPH01000006.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-69-15 69_15_contig_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 179787 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 179725 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 179664 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 179603 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 179542 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 179481 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 179420 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 179359 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 179298 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 179237 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 179176 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 179115 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179054 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 178993 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 178932 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 178871 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 178810 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 178749 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 178687 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 178626 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 178565 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 178504 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 178443 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 178382 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 178321 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 178260 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 178199 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], //