Array 1 231937-233122 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSI01000002.1 Salmonella enterica subsp. enterica serovar Newport strain BCW_4376 NODE_2_length_359428_cov_2.92174, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 231937 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 231998 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 232059 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 232120 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 232181 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 232242 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 232303 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 232364 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 232425 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 232486 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 232547 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 232608 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 232669 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 232730 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 232791 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 232852 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 232913 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 232974 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 233035 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 233095 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [1-8] 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 249792-251407 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSI01000002.1 Salmonella enterica subsp. enterica serovar Newport strain BCW_4376 NODE_2_length_359428_cov_2.92174, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 249792 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 249853 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 249914 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 249975 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 250036 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 250097 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 250158 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 250219 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 250280 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 250341 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 250402 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 250463 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 250524 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 250585 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 250646 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 250707 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 250768 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 250829 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 250890 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 250951 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 251012 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 251073 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 251134 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 251195 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 251256 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 251317 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 251378 29 100.0 0 ............................. | A [251405] ========== ====== ====== ====== ============================= ================================ ================== 27 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], //