Array 1 108456-106613 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIX01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068036 CFSAN068036_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 108455 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 108394 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 108333 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 108272 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 108211 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 108150 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 108089 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 108027 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107966 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107905 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107844 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107783 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107722 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107661 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107600 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107539 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107478 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107417 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107356 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107294 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 107191 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 107130 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 107069 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 107008 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106947 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106886 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106825 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106764 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106703 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106642 29 96.6 0 A............................ | A [106615] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 125530-124587 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIX01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068036 CFSAN068036_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 125529 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125468 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125407 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125346 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 125285 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 125224 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 125163 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 125102 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 125041 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124980 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124919 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124858 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124797 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124736 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124675 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124614 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], //