Array 1 3098326-3096849 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043400.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. JY996 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3098325 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3098264 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3098202 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3098141 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3098080 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3098019 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3097958 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3097897 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3097836 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3097775 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3097714 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3097653 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3097592 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3097530 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3097427 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3097366 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3097305 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3097244 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3097183 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3097122 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3097061 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3097000 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3096939 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3096878 29 96.6 0 A............................ | A [3096851] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 3116073-3114458 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043400.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. JY996 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3116072 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3116011 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3115950 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3115889 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3115828 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3115767 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3115706 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3115645 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3115584 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3115523 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3115462 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115401 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115340 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3115279 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3115218 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3115157 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3115096 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3115035 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3114973 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3114912 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3114851 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3114790 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3114729 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3114668 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3114607 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3114546 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3114485 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //