Array 1 143003-142058 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMK01000004.1 Salmonella enterica subsp. enterica serovar Bredeney strain CVM N43475 N43475_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 143002 29 100.0 32 ............................. GCCGATGACGGACTGGAGGGTGTAGAAGCTGA 142941 29 100.0 32 ............................. ATAAATAATCCGCGTTTCCTCGTCAGGTTCTT 142880 29 100.0 32 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAA 142819 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 142758 29 100.0 32 ............................. GCCGGGGTTTCCCAGAGGCATTCTGATGAAAG 142697 29 100.0 32 ............................. CGAATGCAGATGCCTCCCGTACTGCCGCCGGA 142636 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 142575 29 100.0 32 ............................. AAAACCCAGGAACGGCACCAAAATTTACACAT 142514 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 142453 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 142392 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 142331 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 142270 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 142209 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 142148 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 142087 29 96.6 0 ............T................ | A [142060] ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGAAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 161134-159763 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIMK01000004.1 Salmonella enterica subsp. enterica serovar Bredeney strain CVM N43475 N43475_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 161133 29 100.0 32 ............................. AAATACTGGCCGTCATAACAGACTGAACTAAA 161072 29 100.0 32 ............................. CACATGGACATGATCCGACAGTTTCAGACCAT 161011 29 100.0 32 ............................. GCTTGCCTTTAAACCGCGTCACCAACGTAACC 160950 29 100.0 32 ............................. CCAACAACGGAATGGCCACCATTGAGCAGGAG 160889 29 100.0 32 ............................. GAACGCAACGATATAGAGTTAGTTGTCGTTGG 160828 29 100.0 32 ............................. TCCATCAATCACACGCTGGCGATCTTTCACTA 160767 29 100.0 32 ............................. TCATGCAGGGCGTGAGCATCAGGGCGACGAAC 160706 29 100.0 32 ............................. GGACGCTGGCATATACCAGCACCATGACATAG 160645 29 100.0 32 ............................. CGCAGATGCCCGGCGGCGGCCGTACTCCTGTA 160584 29 96.6 32 ..........T.................. AATGAGGTAGTCTTCACGCGTCATTGACTGGG 160523 29 100.0 32 ............................. GCCGCCCGAGAAAAAGCGGATCTGGATTACGC 160462 29 100.0 32 ............................. TCTGATATCGCTTCTTATGGACAAACGCGCGG 160401 29 100.0 32 ............................. CGCTGGTAGAGGCGCTGGAGAGGGCGCAGCAG 160340 29 96.6 32 .................A........... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 160279 29 100.0 32 ............................. CGGCTAAAAGTCGCGCTGGCAAGATGTCAGCG 160218 29 100.0 32 ............................. GAAGCGCCGCTGGGGCTGGTGGCGGCAGGGTT 160157 29 100.0 32 ............................. AGCCGTTCCCGTTGAATACGCCGGCGGTTATC 160096 29 100.0 32 ............................. GCGGATCAGATAGAAAAACTATTCCGACAGTT 160035 29 100.0 32 ............................. GTCAAGGTGTGTAATTGAGGCATCAAGTTCAG 159974 29 100.0 32 ............................. CCATTTGCTCGCCGTTCCGGCCGAGTTCTGAG 159913 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT T [159908] 159851 29 96.6 32 ............T................ TACCAACAATTCAGCGTTACGCCAACGGTAAC 159790 28 86.2 0 ...............A.AA......-... | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //