Array 1 1-396 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLL01000020.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N50427 N50427_contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. GCTGCGTTCAACAACGGGGAAATGCCGGAGAA 62 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 123 29 100.0 32 ............................. CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 184 29 100.0 32 ............................. GGGATTATGTCCTCTAAAGACTGGCTAATCAC 245 29 96.6 32 .........................G... TTGAATACGTCGCGATACCAGTCACTCCGGAA 306 29 93.1 32 ..C..........T............... AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 367 29 93.1 0 A...........T................ | A [393] ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 94582-95707 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLL01000019.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N50427 N50427_contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 94582 29 96.6 32 ..........T.................. GAACGAGTAATCTTTGTTTTCCCCGTACCTTC 94643 29 96.6 32 ..........T.................. CGAGGATAGTTGTACCAGGTCAGGCCGCGCTG 94704 29 96.6 32 ..........T.................. CAAAATCAAAATTTCGAAATAAATGATTGGAA 94765 29 96.6 32 ..........T.................. TCAAACGGTTCTGGAACATCTAAAAATACATG 94826 29 96.6 32 ..........T.................. CTGGCTGTCTGCGTGATAAATGCAGAGTGTGA 94887 29 100.0 32 ............................. CAGGAATTGGGGATGTTACCTGAAGATGTGAA 94948 29 100.0 32 ............................. TTCAGAACGATTATATTTTGATTTGTGTTCAG 95009 29 100.0 32 ............................. ACCGAGAGTGACATTTTCCCACTACTGGCTGG 95070 29 100.0 32 ............................. GACGCCATGCGCTACGTAGCGACGCGTGTTGA 95131 29 100.0 32 ............................. GAGAGTCGTGGTGAACTGGCAGTGCTCCGGTG 95192 29 100.0 32 ............................. AGATTGGCTATTGCGGTAGCATACTGACTCTT 95253 29 100.0 32 ............................. ATTTTTTGCGGTTCAATCAGCTCATACCACAG 95314 29 100.0 32 ............................. ACAAAGCCAAGCGCTATATGGCCGGTATTTTT 95375 29 100.0 32 ............................. CGCAATGAACTTTGTCGCGCCGCGAGGCGTGC 95436 29 100.0 32 ............................. ATGGTAAATATGAATTTAATGTCTATCCTGGG 95497 29 100.0 32 ............................. CCATGCTCCAGGGTAGCCAACCTGCAAGTAAT 95558 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 95619 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 95680 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGTGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTGATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGAGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 111966-113644 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLL01000019.1 Salmonella enterica subsp. enterica serovar Braenderup strain CVM N50427 N50427_contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 111966 29 100.0 32 ............................. GCGGACTCCTGCACCTCTTTGAGCCCGTCGAT 112027 29 100.0 32 ............................. TCAGCGTAGGTTGTTGATGTTCCCACCAGCCC 112088 29 100.0 32 ............................. GCCACAATCAGATCGAAACGCTCCGGATCACC 112149 29 100.0 33 ............................. TTGTCACTGCCCCTGTTGAATCAATACAGCCAC 112211 29 100.0 32 ............................. CAGGTCGGTTATCTCGAAGCTGCCCGCTCTGC 112272 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 112333 29 100.0 32 ............................. GGGCTATATCCACGCCAAAGGGCCGCGCGACA 112394 29 100.0 32 ............................. CCAGGCACTAACTCGCAGTATCACTCCCTGCC 112455 29 100.0 32 ............................. GTCATCGCCGGTGAGGTATTTTTTTGGCTTAG 112516 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 112577 29 100.0 32 ............................. CGTCCAATACGAGCCGAGTGCTCACGCCCTTA 112638 29 100.0 32 ............................. TTGAGGAATTCTTCCCGCAACGCCTGTTTGTC 112699 29 100.0 32 ............................. CCCTGCCCGGCGATTGGATTATTCGCGGTGTT 112760 29 100.0 32 ............................. GGGGCTATTGAGGTTTGCCAGCACAACCTGTC 112821 29 100.0 32 ............................. TTCCACGCGTCGTCGTCAAACCTCGATTTCGG 112882 29 100.0 33 ............................. CAGAACCTGGCTGATGAGGAACTTTCAATCTGC 112944 29 100.0 32 ............................. TGCGATCTAATCTCCTCTGGCGTGACTGTACG 113005 29 100.0 33 ............................. TTGCCAGCCGAGGCCGTTACCGTTCGCCAGAAC 113067 29 100.0 32 ............................. CGCTGAATTCCGATATTCCGCCGTATTGCACG 113128 29 96.6 32 ............................T TTACGCAATATTAACAGACCAGGGAGCAGCGC 113189 29 100.0 32 ............................. GGGTTATCTCCCTGCCGTTAAAACGGACGTTT 113250 29 100.0 32 ............................. CTCATTTGCCTTGCTTGATGACCACTGCGGTA 113311 29 100.0 32 ............................. TCATCGAGTACGGAAAATCCGTTTTTATTGTA 113372 29 96.6 32 .............C............... CTACGAAGGCGTCTTTATGGCGCACAGTACCA 113433 29 96.6 32 .............C............... CCGTCCAGCTCCACATGCTCGCCAATCTCCTG 113494 29 96.6 32 .............C............... GTTGGCAGCATGATCGCTAAATCTAAAATGCC 113555 29 96.6 32 .............C............... TTAGCCATCCCCATACCAAAGTTAAAGTCGTA 113616 29 96.6 0 .............C............... | ========== ====== ====== ====== ============================= ================================= ================== 28 29 99.3 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGCAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.55,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //