Array 1 52695-54797 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIA010000006.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-058SL opera_scaffold_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 52695 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 52756 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 52817 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 52878 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 52940 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 53001 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 53062 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 53123 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 53184 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 53245 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 53306 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 53367 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 53428 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 53489 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 53550 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 53611 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 53672 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 53733 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 53794 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 53855 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 53916 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 53977 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 54038 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 54099 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 54160 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 54221 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 54282 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 54343 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 54404 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 54465 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 54526 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 54587 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 54648 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 54709 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 54770 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 72430-74411 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDIA010000006.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-058SL opera_scaffold_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 72430 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 72491 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 72552 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 72613 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 72674 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 72735 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 72796 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 72857 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 72918 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 72979 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 73040 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 73101 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 73162 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 73223 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 73284 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 73345 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 73406 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 73467 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 73528 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 73589 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 73650 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 73711 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 73772 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 73833 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 73894 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 73955 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 74016 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 74077 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 74138 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 74199 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 74260 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 74321 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 74382 29 100.0 0 ............................. | A [74409] ========== ====== ====== ====== ============================= ================================ ================== 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], //