Array 1 476478-477299 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDHW010000003.1 Salmonella enterica subsp. enterica strain SGEHI2016-PSU-BS-089SL opera_scaffold_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 476478 29 100.0 32 ............................. TGCCTCAAGATTTTGAGCGGACGGGAGCTGGC 476539 29 100.0 32 ............................. GATGCATGGGAGCACGGTAAACCACTGGCGCA 476600 29 100.0 32 ............................. CGCATATAAAGCTGGCCTTACCGCTGGCTGGA 476661 29 100.0 32 ............................. CCATACCATTTCCACTGGCGCAACGATTTTTG 476722 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 476783 29 100.0 32 ............................. ATAACGACCTTGAGACGGTCTCAGTTCGCTGG 476844 29 100.0 32 ............................. AGAATGTTCAGAACGATTATATTTTGATTTGT 476905 29 100.0 32 ............................. GAAATGGCGATAGGCTTAGAAACGGTGCTGTC 476966 29 100.0 32 ............................. GGGCTCATAAGTATTTCACTGACTGACTACGG 477027 29 100.0 32 ............................. GCGCTAACCCGCGTCATTTCATCTGACACGCC 477088 29 100.0 32 ............................. CTATTTACCACGTATTTATCAGTTCGACAAAA 477149 29 100.0 32 ............................. GAGGGGAATCACCGCCTCGCCGAGCGCTACGC 477210 29 100.0 32 ............................. ATGCAGAAATGCGAGCGATGCACACGCCCCAT 477271 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 14 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAATAGTTTATAAACAACAATATACGTTTAGT # Right flank : GATGCAGAAATGCGAGCGATGCACACGCCCCATGTGTTCCCCGCGCCAGCGGGGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAACCGTTTCCGCAGATAGCTGCGAACGCCGGTTATTAGTGTTCCCCGCGCCAGCGGGGATAAACCGGATGTAACGTCTCTCACCTGGCCCGGCGTAACATGTCCCCCGCGTCAGCGGGGATAAACCGGGAATATGAAAATTATTATTTTTGCAACTGCAGTGTTCCCCGCGCCAGCGGGGATAAACCGCGTTTCTCACCTTTTATTCCACAGCAGACGATGTGTTCCCCGCGCCAGCAGGGATAAACCGGCCCGATCCCATCCTGGTATCGAGCCTCTGAAGTGTTCCCCGCGCCAGCGGGGATAAACCGGGGATCGCGCTGGCGGTCGCATCCGTTGCC # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [73.3-33.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 477496-477828 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDHW010000003.1 Salmonella enterica subsp. enterica strain SGEHI2016-PSU-BS-089SL opera_scaffold_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 477496 29 100.0 32 ............................. GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 477557 29 89.7 32 A...C.......T................ GGAATATGAAAATTATTATTTTTGCAACTGCA 477618 29 100.0 32 ............................. CGTTTCTCACCTTTTATTCCACAGCAGACGAT 477679 29 96.6 32 .................A........... GCCCGATCCCATCCTGGTATCGAGCCTCTGAA 477740 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 477801 28 86.2 0 .........A..T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 95.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGCTCATAAGTATTTCACTGACTGACTACGGGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGCTAACCCGCGTCATTTCATCTGACACGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGCTATTTACCACGTATTTATCAGTTCGACAAAAGTGTTCCCCGCGCCAGCGGGGATAAACCGGAGGGGAATCACCGCCTCGCCGAGCGCTACGCGTGTTCCCCGCGCCAGCGGGGATAAACCGATGCAGAAATGCGAGCGATGCACACGCCCCATGTGTTCCCCGCGCCAGCGGGGATAAACCGATGCAGAAATGCGAGCGATGCACACGCCCCATGTGTTCCCCGCGCCAGCGGGGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAACCGTTTCCGCAGATAGCTGCGAACGCCGGTTATTA # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 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 [3-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [31.7-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 494375-497943 **** Predicted by CRISPRDetect 2.4 *** >NZ_JADDHW010000003.1 Salmonella enterica subsp. enterica strain SGEHI2016-PSU-BS-089SL opera_scaffold_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 494375 29 100.0 32 ............................. TCACTATGTTAGGTATTTTCAAAAAGAAAGCT 494436 29 100.0 32 ............................. TGGGCAAAGTCTGGTTGTGTTATTGGAAGACT 494497 29 100.0 32 ............................. CGCAAGAAAGAGAGCAGTTTGCTCACTACCGG 494558 29 100.0 32 ............................. TAGTCGCAATCGACTTTATTCAGTAATCAATA 494619 29 100.0 32 ............................. AAAAGTTACCGTTCCCCCCGTTTCAGAGAACA 494680 29 96.6 32 ............................A GTACCATCCTCATATCGTTTTTGAGTTATATC 494741 29 100.0 32 ............................. GGACGGGTAACAGCGTGCTTGGTTCTGGTAAC 494802 29 100.0 32 ............................. CCTTCAGGCGAGCATCCGTAAAATTCTAATGG 494863 29 100.0 32 ............................. AGGCCGGGTTTTTTGATGGTGTGGTGATGGCA 494924 29 100.0 32 ............................. CAACATAGCTCGTAGTTTCTTAAAGGTGATTT 494985 29 100.0 32 ............................. AGTTAATCGCTATCGATGCAGGGGGCGATTTT 495046 29 100.0 32 ............................. TTTGCAAATCTCACCACATACCAGGCGCGACA 495107 29 96.6 32 ............................T TGTCTGTAACTCATGCCTTCCCTCATCTGGCC 495168 29 100.0 32 ............................. GATACTGATGGTGGCAAGCTGCCTACTTTTAA 495229 29 100.0 32 ............................. GAGTGGAATCCTCAATATCCAAACGGGGAATT 495290 29 100.0 32 ............................. GAGGCGTGGGAGGTTCTGCTGCCGACAATCCG 495351 29 100.0 32 ............................. GGAGAGCGCCTTTTTGATAGCGTCAGTCAGGG 495412 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 495473 29 100.0 32 ............................. CTCGGCATTCGCGCAACAACCCTGGTTGTCCC 495534 29 100.0 32 ............................. GCGTACGGGGCTAACCCGTTCCAGTTGCTGCC 495595 29 100.0 32 ............................. ATATCAGACTCGGAGCGCTTAACTTTGAGTGC 495656 29 100.0 32 ............................. CGCGATTTAACATTGATTCAAAAGGGGAATGT 495717 29 96.6 32 ............................A CCCATGAGCTGATCCGCAAGGCTGGCCGCAAC 495778 29 100.0 32 ............................. GTCATTGGCGTGGCTGGCGCAGCAATCGGCGG 495839 29 100.0 32 ............................. CAAAGAGAAAATGGAGCGCCTGCAATCAACGT 495900 29 100.0 32 ............................. CTGGTGGCCGCACTGTGTGCCGACGGGGAATT 495961 29 100.0 32 ............................. TACAGTAAAACGCTAAACTTTTTTATTGTCGC 496022 29 100.0 32 ............................. CGCCGCTGGTGCAGACGCCGCGCCAGCCGTCA 496083 29 100.0 32 ............................. CAACGATTTAGCCCCGACATTTGACACTATGC 496144 29 100.0 32 ............................. GTTTCGTTTTTATTGCAGCTAATAACGACAGC 496205 29 100.0 32 ............................. AAAAAAGCGCCCGCATGATGGCGCGGTTACTT 496266 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 496327 29 100.0 32 ............................. AAAGCGCGGATCAGGCTAACTCAATCAAATCG 496388 29 100.0 32 ............................. CCGCTGACGGTGGCCGCACGTTAGATGCTGAG 496449 29 100.0 32 ............................. CAGCGACACCACCCGCCCGGGGACATTGCGCA 496510 29 100.0 32 ............................. AGCTGTCGCCTGGCGAGTGCTCGACGCTCAAT 496571 29 100.0 32 ............................. AGTAGAGCTGACCGTTTCGCTGATTGCGCTGA 496632 29 100.0 32 ............................. GTTTTGCGCCGCCATACCTGCCTGACCAACGG 496693 29 96.6 32 ..............T.............. GTGGGGCGGACAGGCTGCCAGAGGCATTGGAT 496754 29 100.0 32 ............................. TTTGGGAGGATCGTCAGGGACTCCCGCGCCCG 496815 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 496876 29 100.0 32 ............................. AATGGTCCGCAGCTCTGCGCGCAACGCCCGGT 496937 29 100.0 32 ............................. CGCAGAAATCCGTAATCGCATGGATCAAAAGT 496998 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 497059 29 100.0 32 ............................. AACGCTGCTGGCAGTCTGACCCTATTGATTAA 497120 29 100.0 32 ............................. AGGCACTGAATCATGAAAATCAGCCCTCCAAT 497181 29 100.0 32 ............................. AACTAAACGCACCAATCAGAGGGCTTTTTGAT 497242 29 100.0 32 ............................. GCCGGCGGCAGTGGTTAATATCAGAAATAAGG 497303 29 100.0 32 ............................. GAGGTTTGGCTGAATTTTTGGTGTGGGCTGGA 497364 29 100.0 32 ............................. CCTTCAGGCGAGCATCCGTAAAATTCTAATGG 497425 29 100.0 32 ............................. GCGACCTGACTGAATCTCCTTTTTCAGTTGGG 497486 29 100.0 32 ............................. GTCTTTTTCCCTGCCCATCTTTCAGCTTCTAA 497547 29 100.0 32 ............................. AATCGCGCGCGCTGGCAGGGGAAATGATGGTC 497608 29 100.0 32 ............................. CGGGGGTTTCCACTCAAATACAGGTAGAACCA 497669 29 100.0 32 ............................. GTTCCGTGTCATTTTTATCGCCAGCACGCCGT 497730 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 497791 29 100.0 32 ............................. AGTGAGCAGGAGCGCAACGTTTATCAGCTTAT 497852 29 96.6 33 ..........................T.. GGGAAAAAATATTTTGCCAAAATGTTCACTTAC 497914 29 96.6 0 ............T................ | A [497941] ========== ====== ====== ====== ============================= ================================= ================== 59 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-4] 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], //