Array 1 162770-160811 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPF01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-111-10 111_10_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162769 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 162708 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162647 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162586 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162524 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 162463 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 162402 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 162341 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162280 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162219 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162158 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162097 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 162036 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 161975 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161914 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161853 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161792 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161731 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161670 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161609 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161551 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161490 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161429 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161368 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161307 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161246 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161185 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161124 29 100.0 11 ............................. CGGCCAGCCAT Deletion [161085] 161084 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 161023 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 160962 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 160901 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160840 29 93.1 0 A...........T................ | A [160813] ========== ====== ====== ====== ============================= ================================= ================== 33 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.04, 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 180607-179052 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPF01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-111-10 111_10_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180606 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180544 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 180483 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 180422 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180361 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180300 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 180239 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 180178 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 180117 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 180056 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 179995 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179934 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 179873 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 179812 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 179751 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179690 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179629 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179567 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179506 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 179445 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179384 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179323 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179262 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 179201 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 179140 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 179079 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 26 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], //