Array 1 252297-250190 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRO01000002.1 Salmonella enterica subsp. enterica serovar Braenderup strain 78 NODE_2_length_432142_cov_14.5719, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 252296 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 252235 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 252174 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 252113 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 252051 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 251990 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 251929 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 251868 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 251807 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 251746 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 251685 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 251624 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 251563 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 251502 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 251441 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 251380 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 251318 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 251257 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 251195 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 251134 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 251073 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 251012 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 250951 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 250890 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 250829 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 250768 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 250707 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 250646 29 96.6 32 .............C............... CCTGGCAAATTATTTCCTGGATACTCGATATC 250585 29 96.6 32 .............C............... GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 250524 29 96.6 32 .............C............... GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 250463 29 96.6 32 .............C............... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 250402 29 96.6 32 .............C............... GGGATTATGTCCTCTAAAGACTGGCTAATCAC 250341 29 93.1 32 .............C...........G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 250280 29 96.6 32 ..C.......................... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 250219 29 89.7 0 A...........TC............... | A [250192] ========== ====== ====== ====== ============================= ================================= ================== 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 269681-268555 **** Predicted by CRISPRDetect 2.4 *** >NZ_QDRO01000002.1 Salmonella enterica subsp. enterica serovar Braenderup strain 78 NODE_2_length_432142_cov_14.5719, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 269680 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 269619 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 269558 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 269497 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 269436 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 269375 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 269314 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 269253 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 269192 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 269131 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 269070 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 269009 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 268948 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 268887 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 268826 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 268765 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 268704 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 268643 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 268582 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], //