Array 1 948713-950326 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028318.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CFSAN067216 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 948713 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 948774 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 948835 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 948896 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 948957 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 949018 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 949079 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 949140 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 949201 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 949262 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 949323 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 949384 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 949445 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 949506 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 949567 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 949628 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 949689 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 949750 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 949811 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 949872 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 949933 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 949994 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 950055 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 950116 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 950177 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 950238 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 950299 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 966459-967098 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP028318.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CFSAN067216 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 966459 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 966520 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 966581 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 966642 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 966703 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 966764 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 966825 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 966886 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 966947 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 967008 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 967069 29 96.6 0 A............................ | A [967095] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //