Array 1 109500-107884 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOCX01000018.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3240_R1 NODE_1_length_554106_cov_0.694239_ID_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109499 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 109438 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 109377 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 109316 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 109255 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 109194 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 109133 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 109072 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 109011 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 108950 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 108889 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 108828 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 108767 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 108706 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 108645 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 108584 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 108523 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 108462 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 108401 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 108340 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 108279 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 108218 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 108157 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 108096 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 108035 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 107974 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 107913 29 100.0 0 ............................. | A [107886] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%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], // Array 2 127355-126169 **** Predicted by CRISPRDetect 2.4 *** >NZ_MOCX01000018.1 Salmonella enterica subsp. enterica serovar Newport strain R9_3240_R1 NODE_1_length_554106_cov_0.694239_ID_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 127354 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 127293 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 127232 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 127171 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 127110 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 127049 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 126988 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 126927 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 126866 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 126805 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 126744 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 126683 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 126622 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 126561 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 126500 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 126439 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 126378 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 126317 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 126256 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 126196 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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: 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //