Array 1 108000-106151 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJD01000022.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068029 CFSAN068029_contig_22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107999 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 107938 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107877 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107816 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107755 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 107694 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 107633 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107571 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107510 29 100.0 38 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGACCGAGA 107443 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107382 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107321 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107260 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107199 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107138 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107077 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107016 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106955 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106894 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106832 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106729 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106668 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106607 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106546 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106485 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106424 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106363 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106302 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106241 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106180 29 96.6 0 A............................ | A [106153] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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 125074-124131 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJD01000022.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068029 CFSAN068029_contig_22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 125073 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125012 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124951 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124890 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 124829 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 124768 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124707 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124646 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124585 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124524 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124463 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124402 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124341 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124280 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124219 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124158 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], //