Array 1 426814-427999 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOCV01000015.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3242_R1 NODE_1_length_554167_cov_0.801624_ID_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 426814 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 426875 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 426936 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 426997 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 427058 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 427119 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 427180 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 427241 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 427302 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 427363 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 427424 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 427485 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 427546 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 427607 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 427668 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 427729 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 427790 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 427851 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 427912 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 427972 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 444669-446284 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOCV01000015.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3242_R1 NODE_1_length_554167_cov_0.801624_ID_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 444669 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 444730 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 444791 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 444852 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 444913 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 444974 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 445035 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 445096 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 445157 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 445218 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 445279 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 445340 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 445401 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 445462 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 445523 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 445584 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 445645 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 445706 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 445767 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 445828 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 445889 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 445950 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 446011 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 446072 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 446133 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 446194 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 446255 29 100.0 0 ............................. | A [446282] ========== ====== ====== ====== ============================= ================================ ================== 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], //