Array 1 162387-160727 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIY01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068035 CFSAN068035_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162386 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 162325 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162264 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162203 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 162142 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 162081 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 162020 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 161958 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 161897 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 161836 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161775 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161714 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161653 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161592 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161531 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161470 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161408 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161305 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161244 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161183 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161122 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161061 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161000 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160939 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160878 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160817 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160756 29 96.6 0 A............................ | A [160729] ========== ====== ====== ====== ============================= ========================================================================== ================== 27 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.09, 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 179461-178518 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIY01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068035 CFSAN068035_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 179460 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 179399 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 179338 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 179277 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 179216 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 179155 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179094 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179033 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 178972 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 178911 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 178850 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 178789 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 178728 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 178667 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178606 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178545 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [6-0] 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], //