Array 1 94563-96282 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOGJ01000015.1 Salmonella enterica subsp. enterica serovar Newport str. SH111077 contig015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 94563 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 94624 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 94685 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 94746 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 94807 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 94868 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 94929 29 100.0 32 ............................. TAACCATGGCTAAGAAAAAAACTTACAGGACT 94990 29 100.0 18 ............................. AGATATGAAAAACGTAAA Deletion [95037] 95037 28 79.3 32 AAT..A.A.-................... TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 95097 29 100.0 32 ............................. CAGGCTGGTGCCATAGTTTTGAGTTTCTACCG 95158 29 100.0 32 ............................. CGTTGTCGTTGCTGGACAGAACTCCGGGGACG 95219 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 95280 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 95341 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 95402 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 95463 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 95524 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 95585 29 100.0 32 ............................. CCTCAATTTTGTCTTCACCCAGCCATATTTGC 95646 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 95707 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 95768 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 95829 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 95890 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 95951 29 100.0 32 ............................. CTCCCCCGCCTGATAATTACGCCATCTGCAAT 96012 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 96073 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 96134 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 96195 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 96255 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 29 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATAATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.03, 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 [6-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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 112952-114628 **** Predicted by CRISPRDetect 2.4 *** >NZ_AOGJ01000015.1 Salmonella enterica subsp. enterica serovar Newport str. SH111077 contig015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 112952 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 113013 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 113074 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 113135 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 113196 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 113257 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 113318 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 113379 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 113440 29 100.0 32 ............................. GCATTCCCGATCGTCAACCAGAGAACTGGCAC 113501 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 113562 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 113623 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 113684 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 113745 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 113806 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 113867 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 113928 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 113989 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 114050 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 114111 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 114172 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 114233 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 114294 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 114355 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 114416 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 114477 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 114538 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 114599 29 100.0 0 ............................. | A [114626] ========== ====== ====== ====== ============================= ================================ ================== 28 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-48.3]%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], //