Array 1 514917-517019 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBZ010000014.1 Salmonella enterica subsp. enterica serovar Kentucky strain LSP_235_17 NODE_32_length_749545_cov_85.672264, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514917 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514978 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 515039 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 515100 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 515162 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 515223 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 515284 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 515345 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 515406 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515467 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515528 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515589 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515650 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515711 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515772 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515833 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515894 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515955 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 516016 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 516077 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 516138 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 516199 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 516260 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 516321 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 516382 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516443 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516504 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516565 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516626 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516687 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516748 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516809 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516870 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516931 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516992 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 534652-536633 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBZ010000014.1 Salmonella enterica subsp. enterica serovar Kentucky strain LSP_235_17 NODE_32_length_749545_cov_85.672264, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534652 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534713 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534774 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534835 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534896 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534957 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 535018 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 535079 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 535140 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 535201 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 535262 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 535323 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 535384 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535445 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535506 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535567 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535628 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535689 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535750 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535811 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535872 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535933 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535994 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 536055 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 536116 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 536177 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 536238 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 536299 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 536360 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536421 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536482 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536543 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536604 29 100.0 0 ............................. | A [536631] ========== ====== ====== ====== ============================= ================================ ================== 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], //