Array 1 163064-160957 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDSH01000009.1 Salmonella enterica subsp. enterica serovar Braenderup strain 59 NODE_9_length_185810_cov_23.5769, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 163063 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 163002 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 162941 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 162880 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 162818 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 162757 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 162696 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 162635 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 162574 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 162513 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 162452 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 162391 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 162330 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 162269 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 162208 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 162147 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 162085 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 162024 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 161962 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 161901 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 161840 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 161779 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 161718 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 161657 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 161596 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 161535 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 161474 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 161413 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 161352 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 161291 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 161230 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 161169 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 161108 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 161047 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 160986 29 89.7 0 A...........TC............... | A [160959] ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.4 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [7-0] 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 [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 180448-179322 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDSH01000009.1 Salmonella enterica subsp. enterica serovar Braenderup strain 59 NODE_9_length_185810_cov_23.5769, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 180447 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 180386 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 180325 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 180264 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 180203 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 180142 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 180081 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 180020 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 179959 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 179898 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 179837 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 179776 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 179715 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 179654 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 179593 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 179532 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 179471 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 179410 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 179349 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 : GTGTTCCCCGTGCCAGCGGGGATAAACCG # 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: R [61.7-73.3]%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], //