Array 1 163934-162152 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLB01000002.1 Salmonella enterica strain CFSAN064283 CFSAN064283_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163933 29 100.0 32 ............................. TGATCAACGACAGTAAATAATTTTTCGTGCTG 163872 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163811 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163750 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 163689 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163627 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163566 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163505 29 96.6 32 ....C........................ CCGCTGACGCACTGGATCAACCTGACGCAACG 163444 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 163383 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 163322 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 163261 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 163200 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 163139 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 163078 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 163017 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162956 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162895 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162833 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162730 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162669 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162608 29 96.6 32 .......A..................... TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162547 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 162486 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 162425 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 162364 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162303 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162242 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162181 29 96.6 0 A............................ | A [162154] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATGCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [4-1] 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 181559-180066 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLB01000002.1 Salmonella enterica strain CFSAN064283 CFSAN064283_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181558 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 181497 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 181436 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 181375 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 181314 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 181253 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 181192 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 181131 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 181070 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 181009 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180948 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180887 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180826 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180765 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180704 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 180643 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180581 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 180520 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 180459 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 180398 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 180337 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 180276 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 180215 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 180154 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 180093 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 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 [9-1] 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], //