Array 1 514817-516919 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDHS010000004.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-150SL opera_scaffold_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514817 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514878 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 514939 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 515000 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 515062 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 515123 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 515184 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 515245 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 515306 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515367 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515428 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515489 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515550 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515611 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515672 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515733 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515794 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515855 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 515916 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 515977 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 516038 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 516099 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 516160 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 516221 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 516282 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516343 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516404 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516465 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516526 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516587 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516648 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516709 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516770 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516831 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516892 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 534552-536533 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDHS010000004.1 Salmonella enterica subsp. enterica serovar Kentucky strain SGEHI2016-PSU-BS-150SL opera_scaffold_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534552 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534613 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534674 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534735 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534796 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534857 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 534918 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 534979 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 535040 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 535101 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 535162 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 535223 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 535284 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535345 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535406 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535467 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535528 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535589 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535650 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535711 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535772 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535833 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535894 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 535955 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 536016 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 536077 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 536138 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 536199 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 536260 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536321 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536382 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536443 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536504 29 100.0 0 ............................. | A [536531] ========== ====== ====== ====== ============================= ================================ ================== 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], //