Array 1 135472-133635 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGO01000006.1 Salmonella enterica subsp. enterica serovar Infantis strain CDPH_C74 contig6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 135471 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 135410 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 135349 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 135287 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 135226 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 135165 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 135104 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 135043 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 134982 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 134921 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 134860 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 134799 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 134738 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 134677 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 134616 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 134555 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 134494 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 134433 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 134372 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 134314 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 134253 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 134192 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 134131 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 134070 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 134009 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 133948 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 133887 29 100.0 11 ............................. CGGCCAGCCAT Deletion [133848] 133847 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 133786 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 133725 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 133664 29 93.1 0 A...........T................ | A [133637] ========== ====== ====== ====== ============================= ================================= ================== 31 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 153370-151754 **** Predicted by CRISPRDetect 2.4 *** >NZ_MTGO01000006.1 Salmonella enterica subsp. enterica serovar Infantis strain CDPH_C74 contig6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 153369 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 153307 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 153246 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 153185 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 153124 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 153063 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 153002 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 152941 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 152880 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 152819 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 152758 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 152697 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 152636 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 152575 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 152514 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 152453 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 152392 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 152331 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 152269 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 152208 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 152147 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 152086 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 152025 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 151964 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 151903 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 151842 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 151781 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], //