Array 1 6622-8237 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCBO01000037.1 Salmonella enterica subsp. enterica serovar Newport strain SE74 NEWPORT_S2_trimmed_contig_46, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 6622 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 6683 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 6744 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 6805 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 6866 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 6927 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 6988 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 7049 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 7110 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 7171 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 7232 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 7293 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 7354 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 7415 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 7476 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 7537 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 7598 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 7659 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 7720 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 7781 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 7842 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 7903 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 7964 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 8025 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 8086 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 8147 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 8208 29 100.0 0 ............................. | A [8235] ========== ====== ====== ====== ============================= ================================ ================== 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], // Array 1 1-1186 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCBO01000171.1 Salmonella enterica subsp. enterica serovar Newport strain SE74 NEWPORT_S2_trimmed_contig_198, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 62 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 123 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 184 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 245 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 306 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 367 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 428 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 489 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 550 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 611 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 672 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 733 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 794 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 855 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 916 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 977 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 1038 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 1099 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 1159 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # 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: 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], //