Array 1 459436-460621 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMM01000008.1 Salmonella enterica subsp. enterica serovar Newport str. CVM22707 contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 459436 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 459497 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 459558 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 459619 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 459680 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 459741 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 459802 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 459863 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 459924 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 459985 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 460046 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 460107 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 460168 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 460229 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 460290 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 460351 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 460412 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 460473 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 460534 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 460594 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 477291-478906 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMM01000008.1 Salmonella enterica subsp. enterica serovar Newport str. CVM22707 contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 477291 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 477352 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 477413 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 477474 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 477535 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 477596 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 477657 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 477718 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 477779 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 477840 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 477901 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 477962 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 478023 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 478084 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 478145 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 478206 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 478267 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 478328 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 478389 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 478450 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 478511 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 478572 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 478633 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 478694 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 478755 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 478816 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 478877 29 100.0 0 ............................. | A [478904] ========== ====== ====== ====== ============================= ================================ ================== 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], //