Array 1 514508-516610 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHPZY010000003.1 Salmonella enterica subsp. enterica serovar Kentucky strain 546/06 NODE_3_length_749203_cov_40.557969, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514508 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514569 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 514630 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 514691 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 514753 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 514814 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 514875 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 514936 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 514997 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515058 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515119 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515180 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515241 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515302 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515363 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515424 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515485 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515546 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 515607 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 515668 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 515729 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 515790 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 515851 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 515912 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 515973 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516034 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516095 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516156 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516217 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516278 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516339 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516400 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516461 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516522 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516583 28 79.3 0 ..G............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 97.7 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.93 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.78, # 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: F [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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], // Array 2 534243-536224 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHPZY010000003.1 Salmonella enterica subsp. enterica serovar Kentucky strain 546/06 NODE_3_length_749203_cov_40.557969, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534243 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534304 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534365 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534426 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534487 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534548 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 534609 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 534670 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 534731 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 534792 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 534853 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 534914 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 534975 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535036 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535097 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535158 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535219 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535280 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535341 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535402 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535463 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535524 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535585 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 535646 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 535707 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 535768 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 535829 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 535890 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 535951 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536012 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536073 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536134 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536195 29 100.0 0 ............................. | A [536222] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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], //