Array 1 162516-160618 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPG01000009.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-97-15 97_15_contig_8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162515 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 162454 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162393 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162332 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162270 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 162209 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 162148 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 162087 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162026 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 161965 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 161904 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 161843 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 161782 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 161721 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161660 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161599 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161538 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161477 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161416 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161355 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161297 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161236 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161175 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161114 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161053 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 160992 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 160931 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 160870 29 100.0 11 ............................. CGGCCAGCCAT Deletion [160831] 160830 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 160769 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 160708 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160647 29 93.1 0 A...........T................ | A [160620] ========== ====== ====== ====== ============================= ================================= ================== 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 180414-178798 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPG01000009.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-97-15 97_15_contig_8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180413 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180351 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 180290 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 180229 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 180168 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180107 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180046 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 179985 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 179924 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 179863 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 179802 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 179741 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179680 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 179619 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 179558 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 179497 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179436 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179375 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179313 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179252 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 179191 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179130 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179069 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179008 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 178947 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 178886 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 178825 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], //