Array 1 165435-163514 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJS01000001.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2608 NODE_1_length_604687_cov_53.9038, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 165434 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 165373 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 165312 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 165251 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 165190 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 165129 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 165068 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 165007 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 164946 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 164885 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 164824 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 164763 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 164702 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 164641 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 164580 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 164519 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 164458 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 164397 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 164336 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 164275 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 164214 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 164153 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 164092 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 164031 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 163970 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 163909 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 163848 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 163787 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 163726 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 163665 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 163604 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 163543 29 100.0 0 ............................. | A [163516] ========== ====== ====== ====== ============================= ================================ ================== 32 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 185353-183067 **** Predicted by CRISPRDetect 2.4 *** >NZ_MLJS01000001.1 Salmonella enterica subsp. enterica serovar Kentucky strain SAL2608 NODE_1_length_604687_cov_53.9038, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 185352 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 185291 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 185230 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 185169 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 185107 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 185046 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 184985 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 184924 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 184863 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 184802 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 184741 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 184680 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 184619 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 184558 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 184497 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 184436 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 184375 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 184314 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 184253 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 184192 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 184131 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 184070 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 184009 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 183948 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 183887 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 183826 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 183765 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 183704 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 183643 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 183582 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 183521 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 183460 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 183399 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 183338 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 183277 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 183216 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 183155 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 183094 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 38 29 97.8 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.86, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [10-0] 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], //