Array 1 109322-108133 **** Predicted by CRISPRDetect 2.4 *** >NZ_CASP01000040.1 Salmonella enterica subsp. enterica serovar Agona str. 28.O.08, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 109321 29 100.0 32 ............................. GAGGCGCTGGCCGCGCTGGCCGCAGAAAAATT 109260 29 100.0 32 ............................. GTAGCCTTTAGACACTTTAGCCAGGTTCCCTA 109199 29 100.0 32 ............................. AGCGAAAAAAAAGACGACGAACTCGTCACAAC 109138 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 109077 29 100.0 32 ............................. GTCATTTTCTTGTTAATGGCGCTTGCATTAAC 109016 29 100.0 32 ............................. CTGTGTGGTCTGTGCATAACGGTGTAACAGAG 108955 29 100.0 32 ............................. CTGGGAAGATTGGGCGCTTTCAATATCTTCCA 108894 29 100.0 32 ............................. AAAAATAGTCCTGAACGATAGCCCGCGCGGTC 108833 29 100.0 32 ............................. CAGGAGTGGCTGGAGACTGTCGTCAAGCCTGA 108772 29 100.0 32 ............................. TTTTATAACGACACTAAAACCCGCCAGTTATA 108711 29 100.0 32 ............................. ATTTTAACGGCAAGGTCGACAGGAGATACCAC 108650 29 100.0 32 ............................. GATCATCACCCAGGCATTTTCTGGAATATGAA 108589 29 100.0 32 ............................. AATCCCGATGATCATGAATATTTCTGGCGCCA 108528 29 100.0 32 ............................. GCTAAAACGGCGCTTGAGAACAGTATCAATAT 108467 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 108406 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 108345 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108284 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 108223 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 108162 29 93.1 0 A...........T................ | A [108135] ========== ====== ====== ====== ============================= ================================ ================== 20 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTGAACCCCCTCAGCCTGCGTCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 126142-125608 **** Predicted by CRISPRDetect 2.4 *** >NZ_CASP01000040.1 Salmonella enterica subsp. enterica serovar Agona str. 28.O.08, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 126141 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 126080 29 100.0 32 ............................. CCAACTGGCCTAAAGCAAATCCCGGCTTAGGC 126019 29 100.0 32 ............................. GCGACTGGCTGGTCAGCACGCCGTTAGTCGCC 125958 29 100.0 50 ............................. NNNNNNNNNNNNNNNNNNNNNNNNNNNNTTAAGAAAACCCCGGCTAGGGG 125879 29 100.0 32 ............................. GTTAAGGGGGAGTGAGATGCAGATAAAAACGA 125818 29 100.0 32 ............................. TTTCCAAAAATCACGTCACCCGTTGTGATCTG 125757 29 100.0 32 ............................. AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 125696 29 96.6 32 ............T................ AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 125635 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================================== ================== 9 29 97.7 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGACTGGCTGGTCAGCACGCCGTTAGTCGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGAAATTGTCTGATAGATTGGCAAAAGCGATGGAGTGTTCCCCGCGCCAGCGGGGATAAACCGGCATCCCGGACAACAGGATCATCCCATTTATTGTGTTCCCCGCGCCAGCGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.02, 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: F [63.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 126407-126256 **** Predicted by CRISPRDetect 2.4 *** >NZ_CASP01000040.1 Salmonella enterica subsp. enterica serovar Agona str. 28.O.08, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 126406 29 100.0 32 ............................. GCGACTGGCTGGTCAGCACGCCGTTAGTCGCC 126345 29 100.0 32 ............................. AAATTGTCTGATAGATTGGCAAAAGCGATGGA 126284 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GCATCCCGGACAACAGGATCATCCCATTTATTGTGTTCCCCGCGCCAGCGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTTCCCCGCGCCAGCGGGGATAAACCGGTTAAGGGGGAGTGAGATGCAGATAAAAACGAGTGTTCCCCGCGCCAGCGGGGATAAACCGCCAACTGGCCTAAAGCAAATCCCGGCTTAGGCGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGACTGGCTGGTCAGCACGCCGTTAGTCGCCGTGTTCCCCGCGCCAGCGGGGATAAACCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTAAGAAAACCCCGGCTAGGGGGTGTTCCCCGCGCCAGCGGGGATAAACCGGTTAAGGGGGAGTGAGATGCAGATAAAAACGAGTGTTCCCCGCGCCAGCGGGGATAAACCGTTTCCAAAAATCACGTCACCCGTTGTGATCTGGT # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [36.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //